Pakbaz finished in first place at the Men's Discus Throw F12, throwing 51.06m.
Silver medal went to Heydari who threw 48.65m.
Elbek Sultonov from Uzbekistan earned the bronze medal with a throw of 39.39m.
About 3,000 athletes with disabilities from a record 43 countries and territories are taking part in the games that opened in the Indonesian capital on Saturday.
The Asian Para Games will run through October 13.