Recent chlorophyll‐a fluorescence yield measurements, using single‐turnover saturating flashes (STSFs), have revealed the involvement of a rate‐limiting step in the reactions following the charge separation induced by the first flash. As also shown here, in diuron‐inhibited PSII core complexes isolated from Thermosynechococcus vulcanus the fluorescence maximum could only be reached by a train of STSFs. In order to elucidate the origin of the fluorescence yield increments in STSF series, we performed transient absorption measurements at 819 nm, reflecting the photooxidation and re‐reduction kinetics of the primary electron donor P680. Upon single flash excitation of the dark‐adapted sample, the decay kinetics could be described with lifetimes of 17 ns (∼50%) and 167 ns (∼30%), and a longer‐lived component (∼20%). This kinetics are attributed to re‐reduction of P680•+ by the donor side of PSII. In contrast, upon second‐flash (with Δt between 5 μs and 100 ms) or repetitive excitation, the 819 nm absorption changes decayed with lifetimes of about 2 ns (∼60%) and 10 ns (∼30%), attributed to recombination of the primary radical pair P680•+Pheo•–, and a small longer‐lived component (∼10%). These data confirm that only the first STSF is capable of generating stable charge separation – leading to the reduction of QA; and thus, the fluorescence yield increments elicited by the consecutive flashes must have a different physical origin. Our double‐flash experiments indicate that the rate‐limiting steps, detected by chlorophyll‐a fluorescence, are not correlated with the turnover of P680.