Goals from Sammy Moore and Andy Frampton, either side of a 25-minute stoppage brought about by a thunder storm, handed the visitors the points at Spotland.
The break in play came in the 75th minute of the contest when lightning struck one of the floodlights and plunged the ground into darkness. Club officials eventually managed to get three of the four floodlights operating.
"Individual mistakes are costing us results at the minute and I was disappointed with the two goals we conceded - they were both down to basic, elementary errors," Hill said.
"Individual players will play or won't play with respect to decisions that they make. They have to make good decisions at the right times during games and here individual decision-making was not up to scratch and that allowed Wimbledon to score on both occasions.
"The stoppage can affect both sides. There was an urgency from both teams to want to play a 15-minute game and that might have been different if it hadn't been 1-1 at that stage.
"Had one team been trailing things might have been different. But it was fair, it was even and it suited both sides to go back out."