Luke Donald, Mark James and Maarten Lafeber share second place at 5-under- par 139. Peter Hedblom and Robert Karlsson are tied one stroke further back at minus-4.
Dougherty, who held the first-round lead with two other players, began his round on the back nine at Barseback Golf & Country Club. He stumbled out of the gate with a bogey at his first, No. 10.
He steadied himself with five straight pars before getting that shot back with a birdie at the 16th.
On the front side, he stuck a 6-iron within three feet to setup birdie at No. 1, his second in two days at that hole. He also drained a birdie putt on the fifth, also his second in two rounds there.
After a series of pars, he closed out his round with an up-and-down birdie at the ninth for a round of 69.
'I got off to a bit of a shaky start and it was not as pretty to watch as Thursday, but sometimes these kind of rounds are more satisfying than when you're playing lovely,' said Dougherty. 'I was up at 5:30 AM and I'm not a morning person but I feel pretty good and in the position I'm in, I should be able to get my usual 16 hours sleep in tonight.'
Donald made one of the better moves of the day jumping from a tie for 23rd to a share of second. He also started on the back nine and converted his first birdie at the par-5 12th.
However he stumbled to a bogey at the next, but came right back to birdie the 14th. He moved to 2-under for his round with a birdie at the par-4 17th.
Around the turn, he had another birdie-bogey-birdie stretch from the second. He closed his round of 68 with a birdie at the par-3 eighth.
James birdied two of his first three holes but dropped a shot at No. 5, his 14th. He later wrapped birdies at the fifth and seventh around a bogey at sixth.
Lafeber opened with a birdie at his third hole, No. 12. He struggled to a bogey at the 17th but recovered that stroke with a birdie at the next. He converted a birdie at the second, but stumbled to a bogey at the following hole.
Andrew Coltart and David Gilford, who both shared the first-round lead with Dougherty struggled in the second round. Gilford stumbled to a 2-over 73 and is tied for seventh with 10 other golfers at 3-under-par 141. Also in that group is Bernhard Langer, who was recently named the captain of the 2004 European Ryder Cup team.
Coltart had problems all day and struggled to a 4-over 76. He stands at 1-under-par 143.
Graeme McDowell, the defending champion, posted an even-par round of 72. He stands at 1-over-par 145.
The cut line fell at 3-over-par 147 with 81 players continuing on for the weekend.