Following a year where he was injured in Indy Lights in 2001, he moved into Toyota Atlantic in 2002 and edged Michael Valiante for the series championship.

He was unsuccessful in a bid to find a Champ Car ride for 2003 and came back to earn his second Toyota Atlantic championship in 2004, with six wins to his credit.

Fogarty moved to the Rolex Sports Car Series in 2006, driving for GAINSCO/Bob Stallings Racing in the Daytona Prototype division.

Teamed with Alex Gurney, the pairing combined for a series-record seven wins and ten poles in 2007, en route to the Daytona Prototype drivers' championship.

In 2009, they earned their second Daytona Prototype championship in a season that saw the number 99 GAINSCO Riley Pontiac score four victories and six pole positions.