I get the same thing on Windows XP with Leiningen 1.6.2 on Java 1.7.0 Java 
HotSpot(TM) Client VM

   - copied tools.jar manually to my lib/ just to see if it would work
   - it did, and still gave a warning about tools.jar
   - tried the test drive and when I type v I get this: *clojure\set.clj - 
   source not found.*
      - tried both clojure 1.2.0 and 1.3.0-alpha5
      - with clojure-source version corresponding to the version of clojure 
      each time
   
Here's my project.clj file: 

(defproject foo "0.0.0-SNAPSHOT"
  :description "project foo"
  :dependencies [[org.clojure/clojure "1.3.0-alpha5"]
                 [seesaw "1.2.2"]]
  :dev-dependencies [[swank-clojure "1.4.0-SNAPSHOT"]
                     [clojure-source "1.3.0-alpha5"]]
  :jvm-opts ["-agentlib:jdwp=transport=dt_socket,server=y,suspend=n"]
  :checksum-deps true)

lib/ contains this:

clojure-1.3.0-alpha5.jar
dev/
filters-2.0.235.jar
forms-1.2.1.jar
j18n-1.0.0.jar
miglayout-3.7.4.jar
seesaw-1.2.2.jar
swing-worker-1.1.jar
swingx-1.6.1.jar
tools.jar

and lib/dev/ contains this:

cdt-1.2.6.2-20111019.122151-1.jar
clojure-1.2.1.jar
clojure-source-1.3.0-alpha5.jar
debug-repl-0.3.1.jar
swank-clojure-1.4.0-20111019.122151-12.jar


I should be able to see the source of set.clj, right?

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