Hi George,
I am glad you find the site to be a useful resource.
You may have possibly identified the source of the problem particularly as you can link it in specifically with starting the new training regime you describe. However I would suggest that perhaps it is more likely to be patella-femoral pain syndrome (or chondromalacia patellae) - http://www.sportsinjuryclinic.net/cybertherapist/front/knee/indexcmp.php rather than a problem with the ITB due to the nature of the onset of pain being linked with kneeling.
There is a possibility that there could be some minor element of (natural) wear and tear at the back of the kneecap which could cause the crunching you described, which could perhaps have been "flared up" by the increased contact between the joint surfaces brought about by the kneeling.
It might be worth getting the opinion of a physio just to see if there are any muscular imbalances and to assess whether your problems are due to your aforementioned diagnosis or if something else might be contributing.
Other than that, I would suggest you consider some general strengthening of the knee (you can find these on our site here: http://www.sportsinjuryclinic.net/cybertherapist/front/knee/cmp/strengthening.php and perhaps seeing if taping techniques might help, which you can view here: http://www.sportsinjuryclinic.net/cybertherapist/front/knee/cmp/taping.php
I hope this is of some help, please let us know how it goes!
Ruth Cheesley BSc(Hons) MSc MCSP
Chartered Physiotherapist