Howard, I am 31 years post-injury and can tell you that time is the key to recovery with brain trauma. Depending upon how severe the damage was, her symptoms will likely come and go for the foreseeable future. This will be frustrating for both of you and it will seem like there have been complications or setbacks sometimes, but these will simply be the bad days. Expect them. They will happen. And they will pass.
In my case, the headache,memory problems, cognitive issues etc have never completely cleared - though with most people , I think they do - over time. Regarding the incontinence, remember that the brain is working overtime to figure out how to do things in a new way, or how to accomplish what it used to do the way it learned it initially. Life may be different for you both but that doesn't mean it won't be good. Don't give up - you are already on the shortest path to where you want to be.