My plan is to start 0.5b fresh (including deleting the saves in AppData) to see if their new adjustments work in practice (and catch more glimpses of the legendary Nine Inch Nails shirt). However, I do not feel comfortable recommending doing one thing or another, because whichever action you feel as though you should take depends on how you personally react to the issue.
The last time it happened to me in 0.4b, I was at the end of the game (as of this post), had Rogue at 1,000 for love and trust, was having sex with her, and she gave me the approval to date Jean, so getting bumped down to the mid 900's and not being able to talk to Rogue for a week over whatever "cheating" that the game thinks I did with Laura, is a relatively minor nuance all things considered, even though I'm less immersed and feel like I'm performing quality assurance; which to be fair, it expected for playing a game that is years away from 1.0. Also, my last experience with the bug was also my third experience with it, so I'm just kind of used to it and can make jokes about it, because it's not like getting caught cheating has any real consequences in game. It just hurts your feelings in a "Wait, what the fuck?! When did I ever...!" kind of way.