It was the first time Auburn has been swept by Alabama since 2002.
"They took advantage of our mistakes and our opportunities we gave them," said Auburn coach John Pawlowski. "We just weren't able to capitalize. We weren't able to do that when we had our chances. We didn't have many, but when we did we just weren't able to do that."
The Tigers out-hit the Tide 11 to nine, but couldn't find ways to turn their hits into runs, leaving 10 runners on base.
Auburn also committed two costly errors that turned into two unearned runs.
"We've got to play better defense here for us to win," noted Pawlowski. "We've got to shore up some things. That's part of it. We've got to get better defensively and we've got to get better as a club in a lot of different areas."
Daniel Koger (2-2) took the loss for the Tigers, whose record falls to 17-14 overall and 6-6 in conference play. Alabama improves its record to 13-19 and 4-8.
Koger gave up five hits and two earned runs with two walks in five innings pitched. Jon Luke Jacobs gave up three hits and two earned runs in 1 2/3 innings. Rocky McCord was solid in relief in the eighth, giving up one hit and no runs.
Pawlowski said the sweep was deflating because the Tigers lost three games in the conference.
"This is a weekend where you know that the road in the SEC is tough, and you got to regroup and come back and get yourself back in gear," he said.
Auburn's Blake Austin catches a pop fly near the Alabama dugout in the first inning.
The Tide got on the board first on Sunday. The Tigers had a chance to get out of the second inning unscathed, but Dan Glevenyak lost the ball when he applied the tag on Alabama's Ben Moore, who was caught in a rundown after leading too far off first base.
Koger walked Kenny Roberts to put runners on first and second. James Tullidge then made the Tigers pay with an infield single. Glevenyak dove for the ball to keep it in the infield, but his throw to home plate was wide and Moore scored, giving the Tide a 1-0 lead.
The Tigers had a chance to put runs on the board with two outs in the fourth. Zach Alvord and Blake Austin singled and then advanced to second and third on a wild pitch, but Glevenyak struck out looking to end the inning.
Glevenyak went 2-for-3 on the day with one RBI.
The Tide extended its lead in the fifth with a two-run homer by catcher Brett Booth. Hunter Gregory led off the inning with an infield single to short.
The Tigers got their first run in the sixth inning when Justin Bryant hit a 1-1 pitch over the left field fence for his second home run of the season, narrowing Bama's lead to 3-1. Bryant went 2-for-4 on the afternoon.
The Tide added three runs to its lead in the seventh. After back-to-back singles by Gregory and Taylor Dugas, a double steal put runners at second and third with one out. Jacobs walked Brett Booth to load the bases.
Jared Reaves then hit a sacrifice fly to right field to bring home Gregory. Ben Moore followed that with a single to score Dugas. Dillon Ortman then came on in relief of Jacobs. Alabama added another run when Justin Bryant threw the ball in the dirt when throwing to first base for an out, giving the Tide a 6-1 lead.
The best chance for the Tigers to rally came in the top of the eighth. Cullen Wacker and Justin Bryant singled to start the inning, and Wacker advanced to third on a fly by Zach Alvord. After Blake Austin walked to load the bases, the Tide brought in Jake Hubbard to pitch. Glevenyak hit a sacrifice fly to right to score Wacker from third, closing the gap to 6-2.
"We didn't have many opportunities today," said Pawlowski. "In nine innings, I think we had one lead-off baserunner on. It seemed every time we had somebody on base it was with one out or two outs, so we really didn't have many opportunities to score runs today."
The Tigers return to action Tuesday at 6 p.m. CST in a nonconference matchup against Samford at Plainsman Park.