  | 
  
    Like in the case of the Jones polynomial, we don't have a topological 
    interpretation of categorification.
 | 
    | 
  
    Unlike the case of the Jones polynomial, we don't have a
    characterization of categorification, only a
    construction.
 | 
    | 
   We don't have a "physical" explanation of categorification (like
Witten's Chern-Simons explanation of many other knot invariants).
 | 
    | 
   We don't know how to repeat the story in the case of other knot
    polynomials (though we have high expectations in some cases).
 | 
    | 
   We don't know to generalize categorification to the case of knots inside
other 3-manifolds.
 | 
    | 
   We don't know if the story generalizes to the case of invariants
of 3-manifolds.
 | 
    | 
   Categorification doesn't seem to generalize to virtual knots.
 | 
    | 
  
  We don't understand why the rational homology for all the knots
  for which it was computed always decomposes as a sum of many "knight
  moves" and a single "pawn move" at height 0. At the right are the
  dimensions of the rational homology of the knot
  10100 at height r and degree m.
 | 
     
   
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    | 
   Khovanov's homology is a functor from the category of
    knots with cobordisms to the category of vector spaces! Here's how
    4-dimensional invariance is proven:
 |