In our study, the laser-induced damage densities on a fused silica surface produced by multiple longitudinal mode (MLM) pulses are found to be higher than those produced by single longitudinal mode pulses at 1064 nm. This behavior is explained by the enhancement of the three-photon absorption due to the intensity spikes related to longitudinal mode beating. At 355 nm, the absorption is linear and an opposite behavior occurs. It can be explained with the help of a process involving thermomechanics coupled with the fine time structure of MLM pulses, leading to the possible annealing of part of the absorbent defects.