It is believed that it would affect them like a woman on her period. In the case of an Omega being in heat and an Alpha being in a rut their instincts would take over and their desire to mate would take over. However, during a pre-heat/rut their hormones would be imbalanced causing them to have extreme mood swings.
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AnonymousBrat's Guide to Omegaverse
FanfictionHello, my beautiful dumplings! This has been a long term project of mine that I had started in 2016, I have finally managed to finish it after getting my head down! I hope you all enjoy this guide to Omegaverse!