Special Lagranigian submanifolds are area-minimizing Lagrangian submanifolds of Calabi--Yau manifolds. One can define the moduli space of compact special Lagrangian submanifolds of a (fixed) Calabi--Yau manifold. Mclean proves it has a structure of manifold (of dimension finite). It isn't compact in general, but one can compactify it by using geometric measure theory.
Kontsevich conjectured a mirror symmetry, and special Lagrangians should be "mirror" to holomorphic vector bundles. By using algebraic geometry one can compactify the moduli space of holomorphic vector bundles. By "counting" holomorphic vector bundles in Calabi--Yau 3-folds Richard Thomas defined holomorphic Casson invariants (Donaldson-Thomas invariants).
So far as I know it's an open question (probably very difficult) whether one can "count" special Lagrangians, or define a nice structure on the (compactified) moduli space of special Lagrangians.
To do it one has to study singularities of special Lagrangians.
One can smooth singularities in suitable situations: given a singular special Lagrangian, one can construct smooth special Lagrangians tending to it (by the gluing technique). I've proved a uniqueness theorem in a "symmetric" situation: given a symmetric singularity, there's only one way to smooth it (the point of the proof is that the symmetry reduces the problem to an ordinary differential equation).
More recently I've studied a non-symmetric situation together with Dominic Joyce and Joana Oliveira dos Santos Amorim. Our method is based on Lagrangian Floer theory, and is effective at least for pairs of two (special) Lagrangian planes intersecting transversely.
I'll give the details in the talk.