I say this based solely on my experiences with my own muscle imbalances, but most of the work that I needed to do--at least initially--was off the bike. I'd start with a reputable physical therapist. After a detailed assessment, he/she will probably give you some detailed exercises designed to balance the strength of your left and right sides, as well as your inner and outer legs. Short of some other biomechical problem, like a leg length discrepency, I'd try to work on developing a smooth and even spin. The best way to do that, arguably, is with a good set of rollers.



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She has me working with much lower weights that I have for a long time because her exercises are very, very effective if done right where you are constantly fighting for stability. Not only did my running improve by leaps and bounds, but I noticed this week that I could ride up a steep, loose and rocky trail better than I ever have. Once I started to work with her, it was a shock to discover how strong some muscles were to compensate for the weak ones. You'll notice there is very little that has you doing the same thing at the same time with both arms or legs. 
We can cheer each other on to our respective goals!
