Here's an idea.
Don't show
all the white flags. Just show the uncaps, and the 2 flags in play. If one team captures the others flag , then the losing team's next fallback flag/spawn opens up. Imagine Fallen starting out with 2 uncaps, and just one 1 white flag at crash site. There wouldn't be any confusion, and a definitely a massive battle
I love Frontlines, and the way the fight is so concentrated, but it usually seems like a 1/4 of the server has no clue til its too late.

LOL took me a couple of times to figure out exactly what was going on. Hopefully it will get worked out so it's just a little easier for everyone to figure out.