I am not sure which part needs more explanation but the amplifier itself has an offset, every amplifier has some. Basically, because of asymmetries when you short together the inputs you get non-zero output. That's basic and it doesn't matter if the OTA is fully differential or single ended.
On the other hand, when you open switches connected to that OTA, they cause charge injection at the inputs buts since this is a balanced fully differential structure, the disturbances caused by the charge injection appear as common-mode signals and are rejected by the amplifier to a certain extend. Since that flip-around topology uses bottom plate sampling, the charge injection at the OTA inputs is pretty much input signal independent which is a good thing.
Lastly, during Phi2 the OTA is connected in a unity gain configuration, so it's offset appears between the inputs of the OTA and on the right side of the sampling caps. On the left side you have the input voltage. Thus caps are charged to the difference between the input and offset. This should cancel the offset in the following redistribution phase Phi1. The higher the gain of the OTA, the better the offset cancellation. I am sure you can analyze the circuit applying charge conservation at the inputs of the amplifier, taking into account also the offset and see how this autozeroing happens.