The MiniBooNE experiment at Fermilab reports a total excess of 638.0±132.8 electron-like events (4.8σ) from a data sample corresponding to 18.75×1020 protons-on-target in neutrino mode, which is a 46% increase in the data sample with respect to previously published results, and 11.27 × 1020 protons-on-target in antineutrino mode. The additional statistics allow several studies to address questions on the source of the excess. First, we provide two-dimensional plots in visible energy and cosine of the angle of the outgoing lepton, which can provide valuable input to models for the event excess. Second, we test whether the excess may arise from photons that enter the detector from external events or photons exiting the detector from π0 decays in two model independent ways. Beam timing information shows that almost all of the excess is in time with neutrinos that interact in the detector. The radius distribution shows that the excess is distributed throughout the volume, while tighter cuts on the fiducal volume increase the significance of the excess. We conclude that models of the event excess based on entering and exiting photons are disfavored.