So the question is not as much as about conflict of interest as it is about the success of the project. This will be the third such attempt - Seshan's voter ID, the PAN card and now the UID.
From anti-corruption point of view, this is really going to be helpful. Any government aid etc can be tracked using the UID (i.e. to see who the beneficiary was). Currently a majority of such funds are eaten up by the politicians and bureaucrats. So perhaps that will get reduced. As a state, India is currently a failure: perhaps the UID will help make some ammends.
The implementation is going to be a challenge - currently there are options that are doing rounds: a smart card approach or using a mobile sim card (a govt reserved security domain in every sim card - the sim ID can act as a proxy for UID).