While the issue that the Maquis were founded to fight for was irrelevant in the Delta Quadrant, the Maquis were still a bunch of renegades and terrorists who were unlikely to share Starfleet views and discipline. Chakotay may be an exception because he had been Starfleet, but even so, he was a guy who left Starfleet to fight for what he thought was right, a fact that VOY writers seemed to forget in episodes such as
Equinox, where Chakotay strongly disagrees with Janeway's actions but then caves because "it would be crossing the line", as if the Starfleet chain of command trumps fighting for what he thinks is right. And this guy was a Maquis leader? The other Maquis would be less likely to adjust that easily to the Starfleet discipline. B'Elanna was someone who had a number of disciplinary problems and suspensions at the Academy and eventually dropped out. Well forgive me for thinking that such a person would not become a good obedient Starfleet member in just a couple of days! Many of the other Maquis had never had anything to do with Starfleet. Yet they all agreed to wear Starfleet uniforms and became good Starfleet members in less than a season? You have to wonder why Starfleet ever bothered with the Academy in the first place, when people can be recruited and trained that easily.

What is the point of introducing another faction to the Voyager crew, if it was going to immediately blend in completely with the Starfleet crew?
The only time VOY really utilized the Maquis premise was with Lon Suder, in an organization as the Maquis you'll also be likely to find some sociopaths who were just looking to fulfill their violent impulses.
I wouldn't expect constant mutinies or the Maquis and the Starfleet at each other's throats all the time, but it would make a lot more sense if there was some tension and disagreement over the objectives and means, or even just everyday issues. I find it hard to believe that they were all as eager to follow every Starfleet principle and norm as Janeway would be.
And, for that matter, Maquis or not Maquis, I find it hard to believe that every person on board the ship would support Janeway's almost every decision in a situation that Voyager was in. On the show, there was some disagreement in season 1 with
Prime Factors, but later on it seemed that everyone was always behind Janeway 100%. Realistically, there would certainly be people who would want to get back home no matter what. But on the show, that was reserved only for a villain like Seska. And I think that there would also be people who would figure that they could never go back home, and would want to just find a place to live on a nice, habitable planet. (Maybe some of the Maquis would prefer that, since they were likely to get arrested if they managed to get back in Federation space.) But what happened on the show when Janeway suggested that anyone who wanted to stay on the planet could stay (I think it was in
The 37s)? Not a single person applied!

Oh come on.