The main issue is that while utter noobs can still win in confronts, it's not the same in FS. Suppress and FS require a coordinated team, and the community isn't right to support that, unless you find a guild that specifically enjoys FS.
Or, I suppose you can do what I hear Lilac Moon does, and just go from base to base like a line of ants, but that gets sort of boring.
Bottom line, it takes more skill and coordination to pull off a successful FS match, because one weak link can ruin the entire match, and spamming one move isn't going to change that.
The reason no one plays capture/destroy matches is the same as 75% of the problems... lag, except this time in reverse. Most of the server lags, which doesn't help you nearly as much in other game modes. Thus, they end up sucking (and most people can't build a decent capture weapon) and not playing.
This. How many of us complain about lag in confronts because it gives someone an advantage? It's not the same in fighting strength because instead of helping you, lag can make things worse. It takes longer for the base to change sides, you can go a full evo and not see an NPC's health go down until you start the next attack, and other issues that are so numerous I don't want to bother naming them.
The only way to fix this is to fix the server, which Aeria obviously doesn't plan to do. If they did, it would have been done already.
Hardly matters though. Eventually the game will die, and then everyone will find another and say, "Remember that crappy game that Aeria didn't give two **** about?"