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I think you have thrips. Look for little white or yellow 2 mm long, thin bugs on the tops of lower leaves. They move fast so look carefully. This is an excellent thread on thrips: http://www.icmag.com/ic/showthread.php?t=61807
If it is thrips get Spinosad, otherwise known as Monterey Garden Spray. Organic, safe and deadly to thrips. I had em, I used it once, they are gone as far as I could tell. A followup spray 7 days later is recommended, but less is more as far as I am concerned.
Some of those other marks looks like the beginnings of calcium deficiency, a common ailment when the strain is real cal hungry.