The boozing session occurred when the England squad were off duty, according to a spokesman for Rooney, after England had beaten Scotland on the Friday night.
England's record goal-scorer had been told by interim England manager Gareth Southgate he would not be involved in the friendly on Tuesday against Spain due to a knee injury.
But midfielders Jordan Henderson and Adam Lallana - who were both involved in the match - have been accused of partying with strippers before taking on Spain at Wembley.
It is believed the Three Lions stars trekked 110 miles from England's base at the Grove hotel in Hertfordshire, to ogle at topless dancers at the For Your Eyes Only club in Bournemouth.
Dancers say that Henderson, 26, and Lallana, 28, turned up at the club with pals at 11pm last Saturday and left two hours later at 1am, reports the Sun.
Both played in England's 2-2 draw with Spain, with Lallana scoring a goal, at Wembley just days later on Tuesday.
The allegations heap further embarrassment on the FA who are still dealing with the fallout from Wayne Rooney's boozy night out at a wedding.
Defender Phil Jagielka was also spotted at the party and posed for a selfie with a guest.
However, it appears the Liverpool pair had a more subdued night than Rooney's with Lallana spotted slowly sipping on a beer while Henderson stuck to water.
For Your Eyes Only has seven branches nationwide and considers itself 'one of the UK's leading Gentlemen's Club brands'.
On its website it says: 'We have multiple VIP booths for your comfort and enjoyment that can be pre-booked in advance, along with continuous stage shows all evening performed by our beautiful dancers.'
One of the dancers at the club said that former Southampton captain Lallana is a regular.
Another dancer who saw the stars, told the Sun: 'Some of the girls were invited up to drink with the group and a couple of the footballers' friends had private dancers.
'I'm not sure their wives or partners would be too happy with them coming here.'
The FA has confirmed that it will be investigating the fresh allegations against Henderson and Lallana alongside Rooney and Jagielka's appearance at the wedding.