Except Naruto did have resets. When his tanks chakra quantity hit zero, he stopped pulling from his own chakra, and started pulling from Kurama. When Kurama hit low and needed to recharge, he pulled from Nature Energy. When Kurama recharged, he started using his again. When the Sage power boosted him, he added it to his Nature Energy and Bijuu chakra. Naruto basically hit zero in his own reserves, and started using the 100% reserves from other sources. Now his other sources are gone/compromised, so he's stuck with his zero sources. Naruto hasn't been running on an empty tank, he just switched out his tanks whenever they depleted with new, full ones.