Ship wildly wiggling when rover is docked

[Dreadthrone]

Title. I docked another ship to my mothership earlier without any issues, but whenever I try to dock a rover (pictured below) to my mothership, the mothership starts wildly flailing around, not quite enough to rip it apart, but still enough to separate some docking ports (strangely, the docking ports in the second picture were the only things to come off, the one holding the rover seems unaffected though) and make it impossible to fly. The issue happens whenever I dock that type of rover, I haven't tested to see if it still happens with ships other than the rover. Restarting KSP doesn't fix it.

http://imgur.com/a/fjdYR

Almost every part on either ship is added or modified by a mod.

Edited August 29, 2016 by Dreadthrone

[radonek]

Try "control from here" on some part on ship major axis. If that wont help, disable all reaction wheels except one closest to controlling part.
 

[Dreadthrone]

Sadly that didn't fix the problem. Thanks for the effort though 

EDIT: Just tried docking one of my microlanders to it, it seems to only happen with the rover.

Edited August 29, 2016 by Dreadthrone

[Dreadthrone]

Found a way to fix it. If anyone else has the issue, the fix is to go back to the spaceport after docking, when you come back to the ship the wiggling will have stopped