The answer to this is obviously yes.
For example, you can use TOB to "power up" the fighter class, if you feel that it is not as good compared to some of the other core classes, by allowing fighters to take Martial Study more than three times (say, one extra time for every four fighter levels), and giving fighters of 4th and higher level an initiator level of fighter level -2.
Another idea I've been toying with for spell-less and mount-less paladins is to give spell-less paladins a bonus Martial Study or Martial Stance feat for the Devoted Spirit discipline at 4th, 8th, 12th and 16th level, and mount-less paladins a bonus Martial Study or Martial Stance feat for the White Raven discipline at 5th, 8th, 11th and 15th level. Similarly, a spell-less and mount-less paladin's initiator levels for the Devoted Spirit and White Raven disciplines respectively would be paladin level -2.