In this sequel to [L-Y1],[LLSY], and [L-Y2](respectively arXiv: 0709.1515 [math. AG], arXiv: 0809.2121 [math. AG], and arXiv: 0901.0342 [math. AG]), we study a D-brane probe on a conifold from the viewpoint of the Azumaya structure on D-branes and toric geometry. The details of how deformations and resolutions of the standard toric conifold Y can be obtained via morphisms from Azumaya points are given. This should be compared with the quantum-field-theoretic/D-brany picture of deformations and resolutions of a conifold via a D-brane probe sitting at the conifold singularity in the work of Klebanov and Witten [KW](arXiv: hep-th/9807080) and Klebanov and Strasser [KS](arXiv: hep-th/0007191). A comparison with resolutions via noncommutative desingularizations is given in the end.

In this continuation of [L-Y1],[LLSY],[L-Y2], and [L-Y3](arXiv: 0709.1515 [math. AG], arXiv: 0809.2121 [math. AG], arXiv: 0901.0342 [math. AG], arXiv: 0907.0268 [math. AG]), we study D-branes in a target-space with a fixed B -field background B along the line of the Polchinski-Grothendieck Ansatz, explained in [L-Y1] and further extended in the current work. We focus first on the gauge-field-twist effect of B -field to the Chan-Paton module on D-branes. Basic properties of the moduli space of D-branes, as morphisms from Azumaya schemes with a twisted fundamental module to B , are given. For holomorphic D-strings, we prove a valuation-criterion property of this moduli space. The setting is then extended to take into account also the deformation-quantization-type noncommutative geometry effect of B -field to both the D-brane world-volume and the superstring target-space (-time) B . This brings the notion of twisted B -modules that are realizable as twisted locally-free coherent modules with a flat connection into the study. We use this to realize the notion of both the classical and the quantum spectral covers as morphisms from Azumaya schemes with a fundamental module (with a flat connection in the latter case) in a very special situation. The 3rd theme (subtitled" Sharp vs. Polchinski-Grothendieck") of Sec. 2.2 is to be read with the work [Sh3](arXiv: hep-th/0102197) of Sharp while Sec. 5.2 (subtitled less appropriately" Dijkgraaf-Holland-Sukowski-Vafa vs. Polchinski-Grothendieck") is to be read with the related sections in [DHSV](arXiv: 0709.4446 [hep-th]) and [DHS](arXiv: 0810.4157 [hep-th]) of Dijkgraaf, Hollands, Sukowski, and Vafa.

We give a simplified and more algebraic proof of the finiteness of the families of Calabi-Yau n-folds with non-vanishing of Yukawa-coupling over a fixed base curve and with fixed degeneration locus. We also give a generalization of this result. Our method is variation of Hodge structure and poly-stability of Higgs bundles.

We classify three fold isolated quotient Gorenstein singularity C^ 3/G . These singularities are rigid, ie there is no non-trivial deformation, and we conjecture that they define 4d C^ 3/G SCFTs which do not have a Coulomb branch.

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