I am having the same issues.

I have selected capital many times... game does not advance

ASSERT FAILED: not cargo of this transport!248Transport:243Troop

Please report this to:
info@humancube.com
Game:514684192 SID:22-00000000000000000000-0000
Version:25

Unable to slect any troops for movement

Battle in Java Sea, i lost loaded transports before I lost destroyers and cheaper forces. Shouldn;t losses be taken in reverse order of value???

ASSERT FAILED: Troop cant be used as a transport

Please report this to:
info@humancube.com
Game:915658664 SID:22-00000000000000000000-0000
Version:25

Year 2015 Nine Bots and One Human Standard World #915658664

Waiting for robots (6 of them) to submit turn