The “Fani Maoré” eruption off the coasts of Mayotte has been intensively monitored by applying methods similar to those used for subaerial eruptions. Repeated high-resolution bathymetric surveys and dredging, coupled with petrological analyses of time-constrained samples, allowed tracking the evolution of magma over the whole submarine eruptive sequence. Indeed, after one year of direct ascent (Phase 1), basanitic magma switched to a different pathway that sampled a tephri-phonolitic subcrustal reservoir (Phase 2). Later, the magma pathway shifted again in the crust resulting in a new eruption site located 6 km northwest of the main edifice (Phase 3). The petrological signature of lava flows reveals both an evolution by fractional crystallization and syn-eruptive mixing with a tephri-phonolitic magma. We demonstrate that high-flux eruption of large volumes of basanitic magma from a deep-seated reservoir can interact with shallower reservoirs and remobilize eruptible magma. This has significant hazards implications with respect to the capacity of such large eruptions to reactivate shallow-seated inactive reservoirs from a transcrustal magmatic system that could be located potentially at a distance from the high-flux eruptive site.