Isa Khan may refer to:
- Isa Khan of Bengal,16th-century Baro-Bhuiyan noble
- Isa Khan Niazi,16th century Afghan noble, in Sher Shah Suri's royal court
- 'Isa Khan Gorji, was a Georgian noble, whose career flourished in the service of the Safavid dynasty of Iran and Azerbaijan.
- Isā Khān, of the Bagrationi dynasty, was a Safavid-appointed ruler of Kakheti in eastern Georgia from 1614 to 1615.
- Isa Khan (Guantanamo detainee 23), United States held Afghani, in extrajudicial detention in Guantanamo Bay
- Ustad Isa, a 16th-century Turkish architect
- Isa Khan, Iran, a village in West Azerbaijan Province, Iran
- Isa Khan-e Olya, a village in Kermanshah Province, Iran
- Isa Khan-e Sofla, a village in Kermanshah Province, Iran
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