This may be a really stupid question, but why are you playing it with CTF anyway?
Solution: don't do that.
and it isn't only the blue flag, as I play blue team and they ate the red flag once.
What you do is this:
-monster Madness
-CTF
-one capture limit zero bots
this is like infiltrating the monsters base to get the flag. Can be a blast until they eat your flag.
If they do that, just type open ctf-(mapname) and it will reopen the map.
example, open ctf-lavagiant
and the map will reopen quickly and you can start over. At one capture games, it won't matter a whole lot.
Can be a blast, I suggest you try it
If they eat your flag though, that's it, game over. No getting it back.