Right now this is the major thing keeping me from playing more or recommend it to my friends. My gaming group feels the same we don't dig evil characters or dark characters we want Heroes to fight for good and justice.
They released the not good characters first because they wanted people to test the "evil" path during Early Access. You will get your good companions at some point.
Currently you can use the multiplayer trick to make yourself a fully custom party, eventually we should be able to make a proper custom party from the start.
As for the companions having two alignments or personalities, this wouldn't make any sense. Perhaps a corruption or redemption story arc for each, but the personalities are already created and alignment isn't listed on character sheets anyway.
I wish we could have 3 companions of each class to cover a version of good, neutral, and evil for each. They don't have to all be origin characters either, just something that would make it easier for most everyone to find a group they like.