Does the dry silica(containing the sample) go directly over the moist silica and than sand is added?
I usually pack the dry loaded silica with a bit of the weak solvent (normally hexane) before adding sand.
After a reaction that yields several products, should i run it quickly through a mini-column to "clean it up" (what does that mean?) and than do a full column, or just go ahead and purify directly with a full column after the reaction?
"Clean it up" is just lab slang for "purify it".
Normally would just aim to get everything out clean in a single column. The only reason I have planned to do two columns in series is on the rare occasion that I have a mixture of 3 things that I cannot separate using only one solvent combination.
e.g. a mixture of A, B and C showed this TLC behavior:
In EtOAc/hexane: R
f 0.40, 0.39, 0.30
In acetone/heaxane: R
f 0.50, 0.31, 0.30
In this case I chose to separate out A first with acetone/hexane and then separate B from C in a second column using EtOAc/hexane.