Chiefs said on Thursday they would not release the five Amakhosi players selected by Igesund for next month's Cosafa Cup tournament in Zambia.
The five Chiefs players are Siphiwe Tshabalala, Bernard Parker, Reneilwe Letsholonyane, Tefu Mashamaite and Eric Mathoho.
Motaung said Chiefs manager Bobby Motaung and head coach Stuart Baxter had met with Igesund, and they informed him their players were tired after a long domestic season and would not be released.
Igesund, however, said Bobby Motaung had not confirmed in writing, as requested, that the players would be unavailable, so he had included them in his 20-man squad.
"We were clearly surprised that Mr Igesund chose Kaizer Chiefs players after this discussion," Kaizer Motaung said in a statement on Friday.
"His comments are unfortunate and I take strong exception to his utterances.
"I will be writing to SAFA to register my disappointment and trust the matter will be resolved.”
Bafana, already without ther services of Orlando Pirates players due to continental commitments, could find themselves without eight of the players selected by Igesund for their opening Cosafa Cup match - a quarter-final against a yet undecided opponent.
SuperSport United CEO Stan Matthews said this week the Pretoria club needed their three selected players - Ronwen Williams, Bevan Fransman and Kermit Erasmus - for their high-profile friendly against English outfit Manchester City at Loftus Versfeld on July 14.
This game is down to be played the day after Bafana open their Cosafa Cup campaign in Zambia.
The United players could be made available to Igesund later in the tournament.
Clubs are not obliged to release players for the Cosafa Cup, which is not on the FIFA roster for international fixtures.