Tribune Entertainment was notorious for meddling in its shows -- firing producers and actors, imposing storyline changes, just micromanaging their shows to death. Andromeda showrunner Robert Hewitt Wolfe was dumped after a year and a half, and I think that was a record survival length for any of Tribune's show developers. The developer of BeastMaster: The Series, Steve Feke (IIRC), was let go after the first year (though I think he had some story input on early season 2), and the developer of Earth: Final Conflict, Richard C. Okie, was let go halfway through season 1. You can see the retooling beginning around the same time, when the Zo'or character is introduced as a more clear-cut antagonist and Da'an begins to become more of a clear-cut good guy, a change from the original premise in which Da'an was so alien and morally ambiguous as to be both protagonist and antagonist at different times.
Generally this was done simply to cut costs -- cast and crew members get raises the longer they stay on the show, so firing them and hiring new, less experienced people to replace them helps keep the budget down. But on the two Roddenberry shows, a key factor is that Tribune wanted something fundamentally different than what Majel Roddenberry and her handpicked show developers, Okie and Wolfe, wanted. She hired them to make smart, sophisticated, thought-provoking science fiction with a genuine sense of the alien and extraordinary; but Tribune wanted lowbrow, conceptually simple action-adventure because that sold well in overseas markets. (Complex ideas and philosophical conversations can be tricky to translate across cultures, but people punching or shooting each other is more universal.) So basically the show developers were let go and their ideas changed because their ideas were just too smart for Tribune's purposes.