Lodonyo: I am glad that you took the time to do all that research and found the answers by yourself!
Regarding your questions:
“1. Is Lord Buddha, in what seems to be an example of how to rid ourselves of “iccha” saying that in the real anapanasati we are clearing immoral CITTA? and literally taking in/causing to arise MORAL CITTA?”
2. Yes. The Bodhisatta (before becoming the Buddha) did the WRONG Anapanasati (breath meditation) that learned from two yogis, Alara Kalama and Uddaka Ramaputta.
– He attained the Buddhahood by discovering the CORRECT Anapanasati.
3. “At this point i’m unsure if I should motivate all my being to sitting in silence and quieting negative thoughts, witnessing neutral thoughts, and cultivating positive thoughts or if it’s more about living morally in life? Both? I will continue reading and meditating on what the proper anapana/satipathana is.”
– Yes. That is exactly what needs to be done.
I suggested some posts to PBR under the topic, “mindfulness practice and eye tiredness/pain“.
You may want to read them too. You may have read some of them already.