As discussed here, it seems that creating a channel and assigning permissions lags the teamspeak 3 server. As stated by ScP, it should be that when permissions are assigned, heavy database operations occur.
Note that this is mostly noticiable in high pop servers. Even if you don't notice heavy lag, average packet loss should increase a little bit. (In my server 0.2%, others I know, 5%).
Check the other thread to see the "debugging made" and discuss here.