Nanobubbles wield a significant influence over the electronic properties of 2D materials, showing diverse applications ranging from flexible devices to strain sensors. Here, we reveal that a strongly correlated phenomenon, i.e., Kondo resonance, naturally takes place as an intrinsic property of graphene nanobubbles. The localized strain within the nanobubbles engenders pseudomagnetic fields, driving pseudo Landau levels with degenerate Landau orbits. Under the Coulomb repulsion, the Landau orbits form an effective SU(N) pseudospin coupled to the bath via exchange interaction. This results in a new flavor screening mechanism that drives an exotic flavor-frozen Kondo effect, which is absent in conventional Kondo systems. The resonance here also exhibits an unparalleled tunability via strain engineering, establishing a versatile new platform to simulate novel correlated phenomena based on pseudo Landau levels.