We explicitly construct a minimal free resolution of the cover ideals of clique-whiskered graphs. In particular, Cohen--Macaulay chordal graphs, clique corona graphs, and Cohen--Macaulay Cameron--Walker graphs are examples of clique-whiskered graphs. We also introduce multi-clique-whiskered graphs as a generalization of both clique-whiskered graphs and multi-whisker graphs. We prove that multi-clique-whiskered graphs are vertex decomposable and hence sequentially Cohen--Macaulay. Moreover, we provide formulas for the projective dimension and the Castelnuovo--Mumford regularity of their edge ideals. Finally, we construct minimal free resolutions of the cover ideals of both multi-clique-whiskered graphs and very well-covered graphs.