Fognini was handed a £18,500 fine for using insulting language towards chair umpire Louise Engzell during his first-round singles defeat to Sefano Travaglia.
However, he played two more matches in the doubles before the committee handed him a suspension and removed him from the quarter-finals of the tournament.
But Nadal believes the delay, blamed on the wait for a translation of what was said, was unacceptable.
“Three days for that? I don’t think so,” Nadal said.
“He has been out winning two matches since then.
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“It is not the ideal situation.
“It would be much better to do it immediately, not three days later.”
Fognini apologised in a post on Twitter, but could still face a further fine of up to £190,000 and bans from future Grand Slam tournaments if he is found to have committed a “major offence”.
“I would apologise to you fans, [and] to the referee for what happened,” Fognini said.
“It was just a very bad day, but it did not forgive my behaviour in the match.
“Although I’m a hot-head (and though I’ve been right in most circumstances) I was wrong.
“But in the end, it’s only a tennis game.”
Fognini has a chequered history with the tennis authorities, having been handed the biggest fine in Wimbledon history back in 2014.
The Italian was told to pay more than £20,000 for through his racquet and arguing with the umpire and another official.