The concept included them at each others throats as part of a military program. That's a flawed concept and they needed that because they had only themselves for the first year.
It's not believable. Modern military is very structured...
So there are no conflicts in the military?
Then part of SG-1 and SGA did not make no sense either, there was a lot of issues in the military how to use the Stargate and run the program.
...this should have been a civilian vs military issue since they have very different ideas of structure
And it was, the ongoing Rush vs Young in the first season + the episode where the civilians takes control over the Destiny.