Oh, what the heck. I've had this pent up for a while.
Now, don't get me wrong, I like VGR - I like to call it imperfect but enjoyable. (Yet, that doesn't stop me from being branded a hater.) But, despite to me being a spinoff with a specific theme (little ship lost), it didn't really act like one.
I think this was because, unlike DS9, they did not pick a particular angle to explore, thus leading it to being called "TNG lite" because they continued the same types of storytelling. The ship being lost wasn't really the focus, as much as a plot device to put the ship somewhere else where the writers had more creative freedom, which ended up translating as "ignoring what we want, and replicating what we liked." On top of that, the good ideas that the production team did have were typically not explored to their fullest potential.
Now, doesn't it seem like there's something wrong there? To me, the opportunity here was to isolate a group of people who might not have wanted to be isolated, and really put them through Hell (Star Trek hell, of course) and really, really examine humanity when pushed to extremes.
The point is, VGR was pretty clever at coming up with decent ideas, but usually pulled the punch when it came to executing them. They relentlessly took the easy way out. I know a lot of this was the network making demands, but I think a lot of it was also Berman and the production buckling. I mean, the agreement between the Starfleet crew and Maquis took place
off screen, in five minutes. That's an episode's worth of materal, right there. The Maquis were
criminals!
So, first and foremost, rewrite the pilot. A ship being pulled somewhere by a somewhat powerful alien for flimsy reasons has always been rather weak to me. Additionally, it has always been oh-so-annoying that the ship was so incredibly well-equipped for making a long-term high-warp journey, as if the team wanted a ship that was both state of the art yet limited in some ways to promote drama. (I imagine this is why a small ship was chosen, but it didn't really do it for me.) So, use this to make it about something, rather than using it as a setup. I think the Maquis idea was a good one that bore more exploration, too.
The Crew. Here I would make a few changes...
Captain Kathryn Janeway: My ideal Janeway would have been something we hadn't seen before; not only a female lead, but a lead with a security/tactical background. (Kirk was a walking stack of books hotshot, Picard was a scientist, Sisko an engineer.) The son of an Admiral, Janeway fought in the Cardassian wars and underwent serious tactical training. While a warm and charismatic person, she is also tough and decisive. (Think Tasha Yar had she made it past the slime pit.) Janeway has been charged with command of
Voyager in order to deal with the Maquis problem, over which she is somewhat torn: as a Starfleet officer, she knows her duty, but can't help but relate to the Maquis over her previous encounters with the Cardassians. Like Kirk before her, Janeway's main failing is that she has a tendency to over-manage, and take too much risk and blame unto herself.
Commander Chakotay: An ex-Starfleet science officer (specializing in archaeology and anthropology) and a native of Dorvan V, Chakotay is of Mayan descent. He left Starfleet to join the Maquis to defend his home world. He is the classic "man of peace become man of war." He does not enjoy violence and is at heart a very gentle and soft-spoken man, yet is firm in his convictions. He is also something of a contradiction: a man of science
and man of faith. He is a leader of a Maquis cell that has recently been tracking some unusual Cardassian activity near the Badlands. When Janeway and Chakotay reach an agreement to integrate the crews, Chakotay's Starfleet commission is reactivated and he becomes first officer, splitting his time between this and the science console. Janeway relies on him for his understanding of science matters. In the lead trifecta of VGR, Chakotay is perhaps most like McCoy of TOS - his concern is for the well being of others first, and he may be the most empathetic member of the senior staff. Yet, he also possesses the scientific curiosity of Spock. Chakotay later fathers a son with the traitor Seska, which he is left to raise when she dies.
Lt. Cmdr Tuvok: Tuvok is a former member of the Romulan military, a defector encouraged by Ambassador Spock to enlist in Starfleet to try to bridge the Vulcan and Romulan peoples. He became a tactical officer and befriended Janeway. As a Romulan, many other Starfleet officers are skeptical of his intentions. However, Janeway trusts him implicitly and he is the closest thing she has to family aboard. (Tuvok, for his part, has a Vulcan wife and several children back home, having spent much time living on Vulcan.) Her safety is his responsibility, and it is one Tuvok does not take lightly. Tuvok is the third piece of the VGR trifecta - he possesses the logical ("warrior stoic") pragmatism akin to that of Spock, yet is prone to emotional reactions and outburts like McCoy. He often butts heads with Chakotay, and brings his pragmatic Romulan nature and wit to bear on those who get in his way. He provides us an insight into Romulan culture, much as Spock and Worf before him did for their respective peoples.
Lt. Nicholas Locarno: Nick Locarno has been branded "irredeemable" because of his actions that caused the deaths of a fellow cadet at Starfleet Academy, and must forever live with this guilt. He is the son of an Admiral, and is a former (failed) Maquis, parolled by Janeway to help her hunt them down. He develops an attraction to Kes, and, as a trained field medic, must sometimes help her and the EMH.
Lt. B'Elanna Torres: Pretty much the same, hates her Klingon half. Ends up bonding with Tuvok.
Lt. Harry Kim: Pretty much the same, except he is Trek's first homosexual lead character. Instead of leaving Libby behind, his partner is aboard, and is recurring character Crewman Michael Jonas, which is made all the more sad when Jonas is revealed as a traitor working with Seska later on and dies...
EMH: Pretty much the same. Grumpy light bulb. Friendliest with Kes.
Neelix: An ex-soldier turned deserter turned trader of various goods (read: junkman) who masks the pain of his near-extinct people and dead loved ones behind a facade of happiness. Part of his growth through the series will be the exposure and reaction to this pain. This Neelix is far less immediately trustworthy than "regular" Neelix, and his skills as a trader are far more valuable to the crew, who must often barter for the supplies they need. He develops an attraction to Kes, and is later charged with having to help raise Samantha Wildman's young daughter, Naomi. (Think of Neelix as the uncle who gets drunk at Christmas parties in this context - lots of fun, with a heart in the right place, but somewhat irresponsible.)
Kes: Here, the Ocampa enjoy a lifespan of 18 years. Kes is about three, and is a physician, one of those who treat Harry Kim and B'Elanna Torres when they are sent to Ocampa by the Caretaker. (Ocampan doctors are not as science-heavy as Starfleet doctors, and tend to rely on homeopathic-type methods of treatment.) This Kes has no prior romantic relationship with Neelix, but is something of a dissident and is eager to flee when Kim and Torres make their escape. She becomes a doctor aboard VGR, and shows burgeoning telepathic potential.
Seven of Nine/
Annika Hansen: Similar to as she was - Seven is an ex-Borg drone, possibly the first human assimilated. She retains many of her Borg implants for much longer, and eventually struggles (successfully) to regain her humanity. However, with her tech so goes her knowledge of advanced Borg science. She is still a skilled scientist, but undergoes a serious identity crisis when she finally becomes fully human. (Plus, Kes doesn't have to leave to make room for her.

)
The Ship:
More or less the same, with emphasis on the fact that this ship is basically a Starfleet destroyer/frigate, a fast ship meant for short-range, short-term missions. (The nacelles on this ship do not move... her pylons sweep gently downward, and the nacelles "hang" on them, much as on the
Miranda class.)
On her initial mission, she carried few medical or science personnel. ("A three hour tour...") She carries few supplies, and if she is to make it home, great care must be given to her. For the first two or three seasons, she will maintain a great degree of cleanliness and repair, but beginning when the Kazon (who will not be called the Kazon) take the ship, she will develop a number of "scars" which cannot be repaired. The ship will not be a wreck, but will show the wear and tear of her travels. The ship will make great use of her "aeroshuttle" landing boat when a larger auxiliary ship is needed, as she only carries four shuttles and two shuttlepods
which cannot be replaced. Power is very scarce, and must be rationed, which really annoys the crew. A lot.
Pilot:
The Cardassians have a secret, and both Starfleet and the Maquis want to know what it is.
Voyager, which is one of several ships that has been charged with dealing with "the Maquis problem" is sent to investigate repots of unusual Cardassian activity near the Badlands. There, they, along with Chakotay's Maquis ship, discover a ancient outpost of the Iconians. The Cardassians have found a starship-sized gateway that they want to use against their enemies, and are testing it out. Both the Maquis ship and
Voyager are pulled through it and find themselves elsewhere, and end up having to work together, as before, the gateway on the other end ultimately being the Caretaker's array. (The Caretaker is one of the few remaining Iconians.) The rest of "Caretaker" would play out pretty much the same; the array is destroyed and the crews can't get home.
Now, the pilot isn't everything. The rest of the show continued to be victim of the same "easy way out" mentality, but it was also a victim of violating those three rules I was talking about. Telling a good story rarely seemed to be a concern, it was more "what have we got this week?" I think the writing team needed more fresh blood, more specific direction, and, generally, to take more risks. So, instead of making
new villains? Borg. I mean, I like the Borg, but this was ridiculous. Look to "Law and Order." Each series has a distinct identity and feel.
In my version of VGR, the crew would have to band together, initially deciding if their little ship is even capable of making the trip home. Once they decide that it is worth trying, they chart a course, all the while exploring and trying to find another Iconian outpost that could send them home, all the while exploring the ancient civilizations of the galaxy. We would learn that the Iconians were actually the ones who created the Doomsday Machine from TOS, and were responsible for another of other TOS "ancient race" things. Their mortal enemies were the Vaadwaur, who the
Voyager crew shall accidentally set loose, and eventually the Iconians became Species Zero - the (accidental) creators of the Borg and first race to be assimilated. Species 8472 will emerge in a slightly altered form, and, together with the Vaadwaur and Borg, will become the only three races to be encountered throughout the series. I'd like to see
Voyager end up working with the Vaadwaur (who at first seem the hardest to get along wtih) to defeat 8472 and essentially reduce the Borg to a non-threat by series' end.
The Vidiians would be retained largely the same, as would the Krenim. The Kazon would be renamed and be designed to be less Klingon-like, retaining the IMO good ideas of an ex-slave species that has divided into sects and stolen their masters' ex-tech. Seska would still be a Cardassian agent and would betray the crew and steal
Voyager. The Hirogen would also be kept.
Great emphasis would be placed on the idea that at first most of these people mistrust and even hate each other, and just want to go home, but that their adventures make them into a family, and they come to actually appreciate the journey of (self) exploration. Of great initial controversy would be: "How do we do this?" The Starfleet crew would mistrust the Maquis and likewise. Further, questions like "Do we allow the crew to have children?," "Do we play by Starfleet rules?," and "To what extent are we willing to compromise ourselves to survive?" are recurring themes.
As for a resolution? I'm thinking that eventually
Voyager just wears out. (Thanks, BSG.

) The ship wasn't designed to make this journey, and the crew ends up having to settle down on a planet and start a colony, where they are discovered several years later by a Starfleet ship. Some of the crew try to return home, only to feel like they don't belong, and so most of them return to their colony to live.