Extra‐large‐pore zeolites for processing large molecules have long been sought after by both the academia and industry. However, the synthesis of these materials, particularly extra‐large‐pore pure silica zeolites, remains a big challenge. Herein we report the synthesis of a new extra‐large‐pore silica zeolite, designated NUD‐6, by using an easily synthesized aromatic organic cation as structure‐directing agent. NUD‐6 possesses an intersecting 16×8×8‐membered ring pore channel system constructed by four‐connected (Q4) and unusual three‐connected (Q3) silicon species. The organic cations in NUD‐6 can be removed in nitric acid to yield a porous material with high surface area and pore volume. The synthesis of NUD‐6 presents a feasible means to prepare extra‐large pore silica zeolites by using assembled aromatic organic cations as structure‐directing agents.