The bottles might blow up, as the infection may continue to ferment. I'd wait until that infection was winding down before bottling.
Well, no, I wouldn't. I actually would dispose of it and bleach bomb my equipment. But others will tell you to wait until it's "done" and then taste it to see if it's at all a decent sour and bottle it.
I've never heard of an accidental sour tasting good, though.