The only reason that pakistan players are not allowed in IPL is because of political issues between the two countries. This actually I dont like, why we bring sports in between political issues. I am sure players from both countries want to play with each other and against each other. We as cricket fans also want this match up but sadly I dont see this happen any time soon because of political tension between india and pakistan.
The key take away from this Pak/India series is that there is no chance of series at least in this decade. Pakistan and India will only play in ICC tournaments like WC and Champions trophy. Lots of Pakistani and Indian players are good friends like we see Shoaib and Harbhajan tweeitng each other. So the issue is not of players but of rulers.