In Voyager, once they joined Janeway's crew, their maquis opinions quickly became muted.
Because the political divide created by a territorial dispute doesn't matter when you're 70,000 light-years from home and unlikely to ever get back.
A religious divide would've served the concept of Voyager
better than a political one.
Actually, it was because as IIRC Brannon Braga himself said, the producers DID NOT WANT conflict on Voyager as was originally indicated.
What they wanted was to basically remake ST:TNG in a slightly different setting with a different ship and crew.
According to Sci-Fi Universe (great magazine), Berman, Taylor and Piller were very surprised that fans did not embrace and enjoy Voyager the same way they did Next Generation.