Looking to get over their disappointment at failing to qualify for the World Cup for the second successive tournament, Italy named an experimental side for their League A, Group Three match in Bologna, and gave Flick's team a real test.
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AS Roma's Lorenzo Pellegrini edged the hosts in front 20 minutes from fulltime as Italy looked primed to secure only their second win in their last six games, but Kimmich pounced three minutes later to earn his side a point.
The draw means Germany have won eight and drawn two of their games since Flick took over from Joachim Loew after last summer's European Championships, with England up next in the Nations League on Tuesday, with Italy taking on Hungary.
"It is a pity we conceded the equaliser straight after, we were naive, because it was not an easy game, especially at the start," Italy coach Roberto Mancini told RAI Sport.
"It was the first time these players played together, they did a great job, they suffered when they had to, attacked when they had to. The lads did really well, they played on a par with what is a great national team at this moment."
The visitors did waste a glorious opportunity of their own in the opening period, with Serge Gnabry firing over from a good position.
Mancini continued to blood young players after the break, with one debutant substitute -- 18-year-old Wilfried Gnonto -- setting up Pellegrini to give Italy the lead.
Sloppy defending then cost Italy dear as they failed to clear the loose ball in the penalty area and Kimmich levelled things up.
The hosts pressed for a late winner but settled for a point as Flick became the third coach in the history of the German national team to stay undefeated in his first 10 matches after Sepp Herberger and Josef Derwall.
"Whether the point was deserved or not, I don't know, but it was too little," Kimmich told RTL. "We wanted to win.
"We know that Italy are in transition at the moment and didn't necessarily have their best team on the pitch, so we wanted to win.
"We didn't always manage to play our game, we weren't as intense as we wanted to be, perhaps that was down to the humidity and heat. I know I had a chance to make it 2-1 as well, maybe I should have scored that."