No, I think the whole process of Extremis (how he received it under duress and without a whole lot of choice. As well as the line of thought that made him decide that was the ONLY way to get rid of the enemy) as well as the sudden onslaught of neural input would be alot for anyone, it's a constant day to day stress that would go a long way in wearing a person down with depression, anxiety, just generally being overwhelmed and disconnected from what's going on around his actual body in favor of all the action in his head.

Also, having an evil robot take over your brain and rewire your body into a chick when you have an obvious love of your penis the way most men do, bound to cause some residual gender confusion (or maybe not, Tony seems to be pretty stable with his sexuality and gender, if I remember a certain hot pink mid drift baring shirt thing correctly...)

Also, the number of times Tony has been mind controlled / had other versions of himself merged into himself / been brain hacked / ditched his body and was left as a sentient armor, just might cause him to develop that type of personality split.

But once you fix the 'injury' the split should also heal as well, though it may take a little time.