Super-thermal energetic particles may alter the kinetic and resonant nature of zonal flows by leading to new types of instabilities. Here we study the effects induced by super-thermal energetic ions on trappedion modes (TIM) by using a reduced Hamiltonian gyrokinetic model, where both fast scales (cyclotron and bounce or transit motions) are gyro-averaged. In particular, we analyse the enhancement of resonant processes induced by energetic ions associated with nonlinear phase synchronization, in an extended version of the TIM model including circulating ions. Once an energetic particle mode is driven unstable, a rich nonlinear dynamics is observed, which encompasses a frequency chirping associated to a synchronization process driven by TIM and a transition scenario. An equivalence with the classic Kuramoto model −the paradigm describing the synchronization of a system of coupled oscillators− explains much of this phenomenology.