This happens on 3.11.1 and the current git version. I'm using binaries I've built on my system (Debian 8 Jessie 32-bit)
I started megaglest on VT7 and set up a game. It's at the screen to wait for players.
I login to X on another display VT3, on the same computer, with a different username.
I start the git version of MG, set up a game, wait for players.
When I switch back to VT7, I notice the "not ready" status is blinking very rapidly, but blinks normally after a few seconds.
The same thing happens when I switch back to VT3. Also, on both displays, the team numbers blink rapidly. They stop blinking rapidly when the "not ready" status stops blinking rapidly.