The Jahn−Teller (JT) distortion is one of the fundamental processes in molecules and condensed phase matters. For photoionized organic molecules with high symmetry, the JT effect leads to geometric instability in certain electron configurations and thus has a significant effect on the subsequent isomerization and proton migration processes. Utilizing the femtosecond pump−probe Coulomb explosion method, we probe the isomerization dynamics process of a monovalent cyclopropane cation (C 3 H 6 + ) caused by proton migration and reveal the relationship between proton migration and JT distortion. We found that the C 3 H 6 + cation evolves from the D 3h symmetric equilateral triangle geometry either to the acute triangle via two elongated C−C bonds (JT1) or to the obtuse triangle via a single elongated C−C bond (JT2). The JT1 pathway does not involve proton migration, while the JT2 pathway drives proton migration and can be mapped into the indirect dissociation channel of Coulomb explosion. The time-resolved experiment indicates that the delay time between those two JT pathways can be as large as ∼600 fs. After the JT distortion, the cyclopropane cation undergoes a subsequent structural evolution, which brings a greater variety of dissociation channels.