Yeah, lots of covers ended up being the definitive version of the song.
Even though his version reached a decent #35 on Billboard, Aretha's version completely eclipsed it. Reportedly, Redding conceded that "it's her song now" (paraphrasing).
To me, he could mean she gets used to living without him when he's on the road and treats it like her home when he gets there, instead of theirs. If he's going to give her most of his money, at least she could make nice.
I've also seen it claimed that Leonard Cohen thought Pentatonix' cover of Hallelujah was the best he'd ever heard but I can't find any confirmation for that.