Zen Master (87381):
  After winning a round of Zendo, the player was given a slip with
  the number 87381 written on it!

Administrative Assistant (54935)
  Each string is a number of related words with one letter missing
   from each word (missing letters in lowercase):
    BRoWN BlUE oRANGE GrEEN BLaCK REd YELLoW
    HOMaN BAIlEY CaNOSA kWON RaJ
    PERl PYTHoN rUBY LiSP AdA JAVa
    LiON GnU LEOPARd TiGER  SnAKE ZEBRa
    tHYME SAGe BaY BAsIL

  The missing letters spell OLORADO, ALAKA, LORIDA, INDINA, TEAS.
  Those are U.S. states missing the letters C, S, F, A, X.  The
   number of the main CS department fax (calling from on campus) is
   5-4935.

Cryptographer (34350)
  The "four-letter alphabet" is RNA.  If you treat brown as A, black
  as U, pink as C and blue as G, the meeples spell out 
   AUG ACC AUU ACG AUA AAC UCU CUG GAG AAU GGG ACA CAC UAA
  which, converted to proteins, creates the amino acids TITINSLENGTH
  (both a start and stop codon are also given, to hopefully help with
  decryption).  Titin, the longest known protein, is a chain of 34350 
  amino acids.

Mailroom Guy (93066)
  Each addressee's name has the same first four letters as their town.
  All 24 permutations of the first four letters are represented exactly
  once in the set, with the last initial ordering the permutations
  (so Sylvia A matches Sylvester with order 1234, Brian B. matches 
  Braidwood with order 1243, and so on - this info is not strictly
  needed to solve though).  The missing permutation is to swap the
  second and fourth letters, so Simon F. must be from a city in CA
  starting with Somi, and there is only one, Somis CA 93066.

Code Monkey (1152): 
  The given "code" is written in the language Ook, and written in a
  spiral.  Once un-spiraled and executed, it prints out a program in
  the language Brainf*** (which happens to be isomorphic to Ook).
  This is also written in a spiral.  When un-spiraled and executed, it
  prints "Number of Ooks".  The number of "Ook"s appearing in the
  original program is 1152.

Number Theorist (57081):
  The answers to the trivia questions by group are:
    1, 1, 2, 2, 4, 4, 8, 10
    2, 22, 164, 1030, 5868
    1, 1, 2, 3, 7, 13, 31, 66
    2, 8, 32, 54, 114, 414
  As indicated by the first letters of the questions, you should
  look up each group in Sloane's Encyclopedia of Integer Sequences.
  These are the initial terms in the sequences 13, 184, 3120 and
  6552.  Those four numbers are in turn the initial terms of the 
  sequence 57801.  Due to an error in the original construction
  of the puzzle, the intended answer was in fact 57081, and this
  error was communicated to teams during the hunt.

Math Teacher (6559)
  Most of the decryption (color -> number) can be done early on, for
  example the upper right box must total 45, this only works if red is
  2 and light blue and yellow are 1 and 4 in some order.  Light blue
  must be 1 to make the region in the lower left totaling 11 rather than 44.
  Final color code is:
        1      2   3     4      5     6     7      8     9    0
    LightBlue Red Grey Yellow Green Pink Orange Purple Black Lime
  Killer Sudoku solved grid is:
   743196852
   962538714
   518472936
   356924187
   174685293
   289317465
   697843521
   431259678
   825761349
  The arithmetic computation at the bottom is 23*19*(7+8)+4 = 6559.

Matchmaker (42173):
  Running the applet gives the solver a series of Numberlink puzzles
  (see nikoli.com for more) except that for some "numbers" (colors here)
  more than two points are given.  For each non-practice puzzle, the
  top of the applet has a different color background.  The set of meeples
  in that particular color for each puzzle will form the shape of a
  numeral.  These numerals are, in order, 4 2 1 7 3.

Crossword Constructor (421386):
  This puzzle has two noteworthy features.  One is the long (theme)
  answers, which spell out CONVERTCOLORS/TONUMBERS/OUTSIDEOF/STROUTSOFFICE.
  The other is that six of the squares need to contain a whole color
  word.  From top down (as indicated in the flavor text), these colors
  are red, orange, blue, black, white and green.  Outside Prof. Strout's
  office is a set of meeples, in the order:
    Blu Org Blk Red Yel Grn Pnk Wht Gray with a 1 written under the
  blue and a 9 written under the gray.  Thus, your six colors convert
  to the digits 4 2 1 3 8 6.

Photographer (907200):
  Each meeple in each photo is covering a single letter.  Putting the
  covered letters in order by rainbow (red/org/yel/grn/blu/purple) and
  within each color by number of dots, spells out BUILDING NUM PRODUCT.
  The six photos were taken in (or near) buildings 9, 4, 70, 8, 9 and 5,
  which have the product 907200.

Jeweler (538):
  Each clue leads to a seven-letter word.  For each "red" word, a yellow
  and blue word can be found so that the three can be interwoven in the
  fashion indicated by the photo, one letter per meeple, where the
  secondary colors are letters common to two words.  For example, with
  the first red, PADDLES, the LE match with the yellow RELEARN going
  the other way, and the AR of that match with the RA of blue CRAWDAD
  going up (which also matches DA/AD with PADDLES).  The eight matches,
  ordered by red word clue (note that this set is not in alphabetical
  order!) are:
    paddles/relearn/crawdad
    sidearm/prayers/freddie
    benecol/toccata/stained
    isomers/greater/getlost
    uniform/trooper/reprint
    enamels/eleanor/tongans
    sooners/treerat/cartoon 
    trainee/sensing/unimart
  Reading the central three letters of each set, as indicated by the
  arrow, you get DEW/EYD/ECI/MAL/FOR/MAG/NET/ISM - which is 538.

META:

  There is a unique mapping of answer to Greek letter.  Specifically:
  a = 538 (Jeweler)
  b = 93066 (Mailroom Guy)
  g = 1152 (Code Monkey)
  d = 54935 (Admin Asst)
  eps = 907200 (Photo)
  z = 57081 (Number Theorist)
  eta = 34350 (Crypto)
  th = 6559 (Math Teacher)
  i = 87381 (Zen Master)
  k = 421386 (Crossword)
  l = 42173 (Matchmaker)

  Reading the indicated digit of each answer (1-indexed), the Where
   comes to 74-1961 and the how 19-36-05.  Going to 74-1961 (a stairwell
   that is not labeled locally but is on floorplans) locates a padlocked
   box.  The combination to the padlock is 19-36-05.