I've made peace with my ME3 ending choice. I still haven't made peace with the ME2 one. More than any other decision in the trilogy, this one drives me nuts, and for all the wrong reasons. Shepard's stated reasons for destroying the base are objectively terrible, arguing from a purely sentimental perspective. At one point he expresses a fear that TIM will use it to build his own Reaper, but that's drowned by the "people died here" argument.
What obliterates my sanity, however, is the contradiction in the statements from Mordin and Legion. The facility is just data, destroying it won't bring people back, they'll have died in vain, we can use it to save others, etc. But then after the Suicide Mission, suddenly they think you made the wrong decision. In fact, every single person thinks you did the wrong thing. It's a total failure in the writing department. I'm actually sympathetic towards the intended point of the ME3 ending, and have long argued that it isn't actually that bad, but I freely admit even now that the ME2 ending is awful, and it's all because the writers didn't seem to agree on what the base choice actually meant.
Which is the real abomination? The Collector Base, or the writing surrounding it?