Thanks for spending time looking into this. I'll try and provide pictures the next time we do some gaming.
Basically, we've played in two sessions, the first battle we played worked perfectly, but all the following ones were bugged. In the second session both games we played worked fine. We managed to pinpoint the issue as apparently having something to do with Alt+Tabbing out of the game at some point...
It seems if one of us (or maybe the host?) has Alt+tabbed before starting the game both sides will deploy in the same zone and after the game has started, the one joining the game will be able to issue commands but his units will not move and nothing will happen on his screen. After a ceasefire or surrender he will see the host player's units in their correct deployment zone, whereas the host will be seeing an entirely different set of events unfold...
Haven't found any pattern with the parameters, some MEs worked, some didn't, same with attacks...Date and conditions have been the same. I am not 100% of whether it is alt+tab specifically to blame or something else related to it.
Thanks again.