The 2006 Patriot League Men's Golf Championship will be held at Navy. The format is a two-day, 54-hole tournament, with 36 holes of play on Saturday, and 18 holes scheduled for Sunday. The Monday following the Championship will be used as a make-up date only to finish a round of 18 holes that has been started on Saturday or Sunday, or to begin and finish a round of 18 holes if Saturday and Sunday were cancelled due to weather. If weather precludes a 54-hole tournament, a League champion will be declared on whatever number of completed nines are played over a two-day period (minimum 18 holes). The individual champion is determined by the low aggregate medal score for 54 holes. All individual ties for first-place are decided by a sudden victory play-off following the final round of play. Team scores consist of the low four (4) scores to be counted each round.
| Saturday, April 22 | Results | Recap |
| Sunday, April 23 | Results | Recap |