It can be difficult sometimes to answer a fitness question in a straightforward manner because a lot of answers start with "it depends." Without the right information it can be really easy to look for answers in other parts of the program. That being said, I'll try my very best to answer your question, and then I'll ask you some more questions to try and follow up with the best possible information later if I'm not successful. Sound good?
As to the question of whether there are too many ab exercises in your program, I'm going to say yes. In terms of your particular injury, I'm going to say that you'd be better served by looking at abdominal exercises that help you resist flexion and rotation instead of actively flexing and rotating.
My recommendation would be to scrap most of the ab work that you do, and focus on building strength through the ab wheel, plank and variations (which you are already doing, I'd recommend learning the Russian Kettlebell Challenge variation), and high to low/low to high chops. For your particular injury I would also recommend incorporating turkish get ups, as it has a very high percentage of peak activation in the rectus abdominus, internal obliques, external obliques and spinal erectors. For a "kick ass core workout" Bret Contreras recommends:
Turkish Get Up
Chin Up, Hanging Leg Raise, or Weighted Swiss Ball Crunch
Ab Wheel Rollout, Bodysaw, or RKC Plank
Kneeling Cable Lift, Tornado Ball Slam, Landmine, or Reverse Hyper
Which rather than focussing on crushing out some abdominal pain in the trenches, focusses on working all of the functions of the abdominal muscles, especially in their role in providing trunk stability. In terms of frequency, I would recommend that you either view this as the warm up you do before your normal lifting and not over-doing it, or if you'd prefer to get into the pain cave warm up with the Turkish Get Ups and follow your regular routine with the remainder.
A lot of compound movements also provide some serious abdominal activation. Suitcase carrys, sledgehammer swings, front and back squats, deadlifts, hip thrusters, bulgarian squats, chins, pullovers, even tricep extensions provide high levels of activation of one core muscle or another. I wouldn't go so far to say that you're going to hurt yourself, but you're certainly misusing a good chunk of your time and effort as well as being at times counter productive.
don't you know there ain't no devil
that's just god when he's drunk