One of the main problems with how Janeway was written IMHO is that she was portrayed as an "anti-stereotype," meaning that they took several female stereotypes and made Janeway the polar opposite:
1. Janeway was excellent at physics and engineering.
2. Janeway was highly competitive and good at sports.
3. Janeway was absolutely not promiscuous (because women can be colored as "sluts" very easily).
4. Janeway was single-minded and always sure of every decision (women are supposed to be weak and indecisive).
5. Janeway couldn't cook.
I could probably go on, but those are the ones that stand out. In regards to #4, I think that's where much of the idea that "Janeway was always right" comes from. The writers were so concerned about her looking weak and/or "flighty," they made it where she was always correct about everything, or, at least, no one ever called her on her more questionable actions. It's a shame because they probably could've greatly increased her "likability factor" with fans if they simply showed her apologizing or defering to the judgement of others once and awhile. Personally, I love Janeway, but I do understand why she rubs some Trekkies the wrong way. Chakotay was a stereotype of a Native American; Janeway was an anti-stereotype of a woman. They both came across looking like cartoons.
Hmmm. I'm wondering if I'm the only one questioning this "anti-stereotype" list.
I was always good at math and science. In college, two of my female friends became pharmacists, three went to medical school, and several are math and science teachers in high school and college.
I loved sports and played competitive softball all through my school years, and recreational tennis after that. In our senior "predictions," my classmates thought I would be running a fitness center.

Women's sports have blossomed over the years, thanks to Title IX, and more and more girls are participating.
As far as promiscuity goes, I'm pretty tame, too--twenty-seven years of marriage, and I'm not bored yet. Are you implying that promiscuity is a female stereotype? In my mind, it's associated more with men than women (although, of course, it takes two to tango).
My cooking has been highly criticized on many occasions; some would say I can't do it, either.
I seem to fit all those anti-stereotypes, yet, to quote Sojourner Truth, "Ain't I a woman?"
As for #4, who would follow a captain who wasn't sure of herself? Can you imagine a captain who waffled when giving orders or who stopped to ask her subordinates what to do? Exuding confidence is what good leaders have to do. However, she was called on her orders at least once--remember her failed attempt to sacrifice herself in "Night"? And she accepted her subordinates' advice (with disastrous results) in "Alliances." As for never seeing apologies and deferrals to her subordinates, I'm assume that being limited to only 42 minutes in every episode might have been one reason, since such scenes would do little to advance the plot.
