Lennon claims the defender played two games for Scot Gemmill's Scotland Under-21s despite a scan showing he had ripped cartilage in his knee.
Porteous faces a further four weeks out after missing all of the club's pre-season programme ahead of their European opener against NSI Runavik on Thursday night.
The 19-year-old centre-back played in all three of Scotland's group games in France along with their semi-final defeat against England, before sitting out the third-place play-off.
Lennon spoke out after being asked about the touchline ban he received after his aeroplane celebrations following his team's late equaliser in a 5-5 draw against Rangers on the final day of last season.
The Hibs boss received a one-match punishment on top of a suspended two-game ban which kicked in when he was charged with misconduct.
'I'm not happy with the ban,' Lennon said. 'Obviously I had a suspension which I knew would kick in but the extra game, I thought common sense would have prevailed.
'And I'm not happy with the SFA over their treatment of Ryan Porteous. He went to the Toulon Tournament and he has not been fit since.
'He had a scan while he was out there that showed a tear in his cartilage and he still played two games after that.
'I have had no contact from anyone at the SFA explaining why my player played with a tear in his cartilage. He has missed all of pre-season and I am not happy about it.'
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