M5-branes on an associative three-cycle M 3 in a G 2 -holonomy manifold give rise to a 3d N = 1 supersymmetric gauge theory, T N =1 [M 3 ]. We propose an N = 1 3d-3d correspondence, based on two observables of these theories: the Witten index and the S 3 -partition function. The Witten index of a 3d N = 1 theory T N =1 [M 3 ] is shown to be computed in terms of the partition function of a topological field theory, a super-BFmodel coupled to a spinorial hypermultiplet (BFH), on M 3 . The BFH-model localizes on solutions to a generalized set of 3d Seiberg-Witten equations on M 3 . Evidence to support this correspondence is provided in the abelian case, as well as in terms of a direct derivation of the topological field theory by twisted dimensional reduction of the 6d (2, 0) theory. We also consider a correspondence for the S 3 -partition function of the T N =1 [M 3 ] theories, by determining the dimensional reduction of the M5-brane theory on S 3 . The resulting topological theory is Chern-Simons-Dirac theory, for a gauge field and a twisted harmonic spinor on M 3 , whose equations of motion are the generalized 3d Seiberg-Witten equations. For generic G 2 -manifolds the theory reduces to real Chern-Simons theory, in which case we conjecture that the S 3 -partition function of T N =1 [M 3 ] is given by the Witten-ReshetikhinTuraev invariant of M 3 .