This work delves into the presence of REE-Ti-Zr-U-Th minerals, in the mafic–intermediate rocks of the Maronia pluton, Greece, an Oligocene intrusion formed through arc-magmatism during subduction. In Maronia monzodiorite, critical metals are contained in three principal mineral groups, namely, the REE-Ti-Zr, REE-Ca-P, and U-Th assemblages. The REE-Ti-Zr group includes REE-ilmenite, chevkinite-like phases, zirconolite, and baddeleyite. The REE-Ca-P assemblage is represented by allanite-(Ce), monazite-(Ce), and huttonitic monazite-(Ce). The U-Th assemblage comprises thorite–coffinite and uraninite–thorianite solid solutions. The paragenetic sequencing of these minerals offers insights into their formation conditions and correlation with the pluton’s magmatic evolution. In the REE-Ti-Zr group, mineral formation progresses from REE-ilmenite to baddeleyite through chevkinite-like phases and zirconolite under oxidizing conditions. The REE-Ca-P sequence involves allanite-(Ce), followed by monazite-(Ce), late allanite-(Ce), and huttonitic monazite-(Ce). In the U-Th group, earlier thorite–coffinite phases are succeeded by uraninite–thorianite solid solutions, indicating Si-undersaturation at late magmatic stages. Fluctuations in Ca-activity induce alternating formations of allanite-(Ce) and monazite-(Ce). These mineral variations are attributed to early-stage interactions between high-K calc-alkaline and shoshonitic gabbroic melts, influencing critical metal enrichment and mineral speciation. The study’s insights into paragenesis and geological processes offer implications for mineral exploration in analogous geological settings.