If going for something like six bases, then I think that there should only be two forward connections from a base. So, in this example, using Bootleg Islands, the set-up would be narrower (by not including Diving School or Bridge).

It was unfortunate that, for technical reasons, we were unable to play-test the new maps with a bunch of players last PvP session.
The single-base capture format in use previously was good for low player numbers, and ideal for 1v1 PvP play (except for being too long by using all the bases). But it got bogged down with higher player numbers.
Conversely, I would imagine that the "all bases capturable" system used in the regular game/co-op would work much better with high player numbers in PvP. However, it wouldn't work well with low player numbers, especially 1v1.
So I'm not sure there's a "one size fits all" way of doing it.
One possibility, although I'm not sure how feasible it would be, would be to have it as single capture when there's one player vs one player. Then if there are more people playing (perhaps two or more players each side), then it would automatically switch to multi-capture. It would be a way of trying to get the best of both worlds, so to speak.