If the question is "should they count the same" -- the answer is an unequivocal yes, and almost every person would agree. Voting reform requires that people put in power by bad systems willingly reform those systems which would see them removed from power. Corruption doesn't remove itself, so discussing this at all is moot, really.
Did you read what I wrote? That's not true of the National Popular Vote. Legislators in a plurality of states can alter the election for President (and so fundamentally shift the nature of national politics) without any cooperation from the President or any Federal official.
 Or rather, a number of states comprising a plurality of electors.
The system that puts legislators into place is a local majority vote, which is just as flawed as a national majority vote. It leads to a 2-party system which concentrates power and typically results in corruption.
Local majority vote --> Two-party system
National majority vote --> Two-party system
National majority vote <--> Two-party system
Two-party system --> National majority vote