Ex-Formula 2 racer Calderon made her series debut at Motegi last weekend for the one-car Drago Corse team, scoring a 12th place finish after starting 18th and last on the grid.
After coming into the pits for fresh tyres at mid-distance, the Colombian found herself ahead of Dandelion Racing driver Yamamoto, who had been forced to pit for a new front wing after making contact with the KCMG car of Kamui Kobayashi.
Tatiana Calderon, Drago Corse
For his part, Yamamoto simply said: "I shouldn't have been fighting for that position. To be honest, it didn't change much whether I passed or not. But I wanted to overtake if I could."
Calderon was one of only two drivers to make a pitstop for strategic reasons during the Motegi race along with Team Mugen's Ukyo Sasahara, who finished one place ahead in 11th.
She admitted that pitting was something her Drago Corse team had planned for pre-race, because her low grid position meant she had little to lose from doing so.
"We studied and we thought if the conditions are very difficult, and we have nothing to lose from where we started, it could be quicker to make a stop," said Calderon.
"The team did a great job with the strategy and the pitstop. For sure we need a little bit more pace, but for the first race I’m quite pleased with what we did."
Calderon will now return to Europe for prepare for the Le Mans 24 Hours, which she is contesting for the Richard Mille Racing LMP2 team.
The Colombian said she is hopeful of being able to re-enter Japan immediately after her first appearance in the French endurance classic in time for the second round of the Super Formula season at Okayama on September 26-27.