A question on morality As I understand it, we carry out generous and selfless deeds for the purpose of acquiring positive kamma and/or promoting our spiritual quest. However, this seems like a form of greed, one of the three unwholesome roots (I think that's what it is labeled as, unsure). How can moral acts be qualified as free of greed, when it seems that the motive for morality is ultimately self-gain (greed)?
Your question might be considered a mixture of asking about sila (morality) and dana (giving). The reasons for doing each are a little different. 

The most basic reason for acting with sila is to prevent remorse at our own wrongdoings which would make samadhi (concentration or meditation practice) far more difficult. Being able to practice proper samadhi leads to panna (wisdom). Sila, samadhi, and panna are all intricately connected and the whole thing breaks down when one is filled with remorse at wrong doing. 

You should be interested in your own enlightenment. From What Buddhist Believe, by Dr. K. Sri Dhammanada. (page 266-267)


  You Have to Save Yourself
  
  ONESELF, indeed, is one’s saviour, for what other saviour
  would there be? With oneself well controlled the problem
  of looking for an external saviour is solved.
  (DHAMMAPADA 166)
  
  As the Buddha was about to pass away, His disciples came from
  everywhere to be near Him. While the other disciples were constantly
  at His side and in deep sorrow over the impending loss of their
  Master, a monk named Attadatta went into his cell and practised
  meditation. The other monks, thinking that he was unconcerned
  about the welfare of the Buddha, were upset and reported the matter
  to Him. The monk, however, addressed the Buddha thus, ‘Lord as
  the Blessed One would be passing away soon, I thought the best way
  to honour the Blessed One would be by attaining Arahantship
  during the lifetime of the Blessed One itself’. The Buddha praised
  his attitude and his conduct and said that one’s spiritual welfare
  should not be abandoned for the sake of others.
  In this story is illustrated one of the most important aspects of
  Buddhism. A person must constantly be on the alert to seek his or
  her own deliverance from Samsara, and ‘salvation’ must be brought
  about by the individual alone. One cannot look to any external
  force or agency for help to attain Nirvana.


Working towards our own enlightenment is clearly acceptable and expected.

The most basic reason for acting with generosity, is to reduce our own greed or attachment to our own resources. If we cling to anything, we suffer. If we give with wholesome intentions, we reduce our clinging to our own resources which reduces our suffering. That's different than giving with the expectation of receiving a good kammic effect in return. There are good kammic effects connected with acts taken with wholesome intentions, but we don't know the timetable on receipt of such kammic fruits. It could be a long way off. 

So we do good things because it's good for our mind states, which is good for our eventual enlightenment. The importance of creating the conditions for our own enlightenment was stressed by the Buddha among his last words.