The 30-year old Ghanaian midfielder, signed from Ukraine's Dnipro on a free in the summer, started in the opening day 1-0 win at Sunderland but has not featured since for the Cottagers with his name not even on the teamsheet for the weekend's 2-0 loss at Chelsea.
Jol explained that Boateng's lack of match practice and versatility forced him to make the decision on the omission.
"On the bench I have to make decisions, like can they play in different positions," Jol told the Fulham Chronicle.
"Derek wasn't even in the 18 for the last game.
"He didn't play for a year and it showed. He was good in the first hour [at Sunderland] and then he dropped a bit."