Datalog and variants of it come up a bunch in program analysis and software security. For example, GitHub/Microsoft acquired a company, Semmle [1], that has an object-oriented query language that compiles down into Datalog, and can be used to query source code in interesting ways. Souffle [2] comes up in static analysis as well, and is used in systems such as Doop [3]. A kind of predecessor to Doop is bddbddb [4].
Souufle has been used in Ddisasm [5] for disassembling binaries. XSB Prolog has been used in OOAnalyzer [6] for inferring class hierarchies and virtual tables in binaries as well.
I myself spend some time working on datalog compilation for program analysis and decompilation :-)