The GEFS shows a larger "retrograding" MJO because the coupling between the atmosphere and underlying ocean is poor in the model, creating overzealous deep convection that rarely, if ever verifies. An equatorial Rossby Wave radiates westward from the convection it's just that in the GFS because there's more superfluous convection, the equatorial Rossby Wave is stronger which = MJO retrogrades more
The MJO can be thought of in first principles as a phenomena that manifests from the collective wave interference from other, smaller, higher frequency equatorial waves that comprise it like the aforementioned equatorial rossby, Inertio-gravity, mixed rossby gravity, and arguably most importantly the (atmospheric) equatorial Kelvin wave. Having a basic understanding of the dynamics of these waves, how they relate to the MJO, and what contribution the mid-latitudes has in triggering and dampening MJO waves actually goes a long way to grappling with situations like this where the MJO isn't continually propagating east.