Polylactic acid (PLA) hexagonal honeycomb structures were fabricated by using 3D-printing technology. By filling with absorbent polymethacrylimide (PMI) foam, a novel absorbent-foam-filled 3D-printed honeycomb was obtained. The in-plane (L- and W-direction) and out-of-plane (T-direction) compressive performances were studied experimentally and numerically. Due to absorbent PMI foam filling, the elastic modulus, compressive strength, energy absorption per unit volume, and energy absorption per unit mass of absorbent-foam-filled honeycomb under L-direction were increased by 296.34%, 168.75%, 505.57%, and 244.22%, respectively. Moreover, the elastic modulus, compressive strength, energy absorption per unit volume, and energy absorption per unit mass, under W-direction, also have increments of 211.65%, 179.85, 799.45%, and 413.02%, respectively. However, for out-of-plane compression, the compressive strength and energy absorption per unit volume were enhanced, but the density has also been increased; thus, it is not competitive in energy absorption per unit mass. Failure mechanism and dimension effects of absorbent-foam-filled honeycomb were also considered. The approach of absorbent foam filling made the 3D-printed honeycomb structure more competitive in electromagnetic wave stealth applications, while acting simultaneously as load-carrying structures.