I don't know about "commonly" used, but Benders is still definitely in use, and I'm pretty sure D-W also is. Benders in particular has evolved beyond the original version created by Jack Benders. In particular, there is work on "combinatorial Benders cuts" [1], where "big M" constraints are replaced by a form of Benders cut, and "logic-based Benders decomposition". I have used a version of the latter a couple of times, where the subproblem is not necessarily a linear program and the Benders cuts are not derived from dual solutions. (In one case, our subproblem identified negative cycles in a network, and each cut was designed to break one such cycle.) There is also recent work on what was coined "implicit hitting set" problems [2], where cuts are generated using an "oracle" (a subproblem that is not necessarily a linear program).
[1] Codato, G. & Fischetti, M. Combinatorial Benders' Cuts for Mixed-Integer Linear Programming Operations Research, 2006, 54, 756-766
[2] Moreno-Centeno, E. & Karp, R. M. The Implicit Hitting Set Approach to Solve Combinatorial Optimization Problems with an Application to Multigenome Alignment Operations Research, 2013, 61, 453-468