Hollow carbonaceous spheres are extraordinarily attractive for their unique structural features and wide applications in various fields. Herein, a facile and effective synthesis methodology based on the extended Stöber process for construction of phenolic resin hollow spheres has been presented. Combined with a series of characterization techniques, the synthesis process was systematically investigated, and a possible synthesis mechanism was proposed. It is revealed that the structural inhomogeneity of the polymer product achieved by using dodecylamine and alkane is responsible for the formation of hollow architecture, which depends on spontaneous selective dissolution during the synthesis process. Different metal-doped carbonaceous hollow spheres can be obtained by introducing corresponding precursors into the synthetic system and meeting requirements of different application fields. This work presented a novel synthesis strategy of hollow carbonaceous spheres, which is significant for building a new platform of advanced functional carbon-based composites.