The England international was recalled after an Achilles injury for Monday's last-gasp 2-1 defeat of 10-man Arsenal.
Zamora scored the all-important goal in stoppage time to put him in the headlines for the right reasons.
The 30-year-old's relationship with Jol has been the subject of increasing scrutiny over recent months, but the Dutchman rejected such talk.
"It's always the same," Jol said.
"If you are number nine at any club and can make the difference, I'm very happy.
"I love my players, especially when they score goals.
"He was injured. We talk about it and make assessments two days before, he was injured.
"He had problems with his Achilles and ankle and couldn't travel with us.
"You have to play another player, and [Orlando] Sa scored which was good.
"We did the same for this game and he said he could play so he plays because he is my main striker."
Zamora has been linked with a January move away from Craven Cottage, with QPR, Sunderland, Aston Villa and Bolton all mooted as potential destinations.
Asked whether the striker would leave during the transfer window, Jol said: "He has never asked me for a transfer request.
"For me, it is just speculation. Maybe you know more than me?"
Jol was more forthcoming when asked about Marseille striker Andre-Pierre Gignac.
The Cottagers have been linked with a loan move for the France international, who almost joined the west Londoners in August.
"We had an interest in him in the last transfer window, then [Marseille manager Didier] Deschamps decided to keep him there because they could not get the player they wanted," Jol said.
"He is still there and nothing changed. But he is injured as well.
"I don't get injured players, it would be ridiculous."
Monday's result was the first time former Tottenham boss Jol has got the better of Wenger, who was riled by the manner of defeat.
The Frenchman was angered by referee Lee Probert's performance, arguing that neither of the bookings that led to Johan Djourou's sending-off were right and felt his side should have been awarded a penalty.
Wenger also apportioned some blame on Fulham, whom he claimed had attempted to get the defender sent off.
"When Djourou got the first card, every time he intervened they went down to get him a second yellow and he did nothing at all," Wenger said.
"I saw it coming, you know. When they brought on [Kerim] Frei they looked for a second yellow card on Djourou and they got it."
He added: "I do not need to make stories for newspapers. I tell you the game I have seen. I don't care about the rest.
"I just felt that every time Djourou was on the fringe to get the second. You can watch the game [again]."