I just noticed the same on amd64. After the oneiric->precise upgrade,
I'm left with

  /etc/alternatives/javac -> /usr/lib/jvm/java-6-openjdk/bin/javac

but the binary is in /usr/lib/jvm/java-6-openjdk-amd64/bin/javac

I purged and reinstalled openjdk-6-jdk, the alternatives are correct
now. So this needs fixing on upgrade.

** Changed in: openjdk-6 (Ubuntu)
   Importance: Undecided => High

** Changed in: openjdk-6 (Ubuntu)
       Status: New => Confirmed

** Changed in: openjdk-6 (Ubuntu)
    Milestone: None => ubuntu-12.04-beta-1

** Changed in: openjdk-6 (Ubuntu)
     Assignee: (unassigned) => Canonical Foundations Team 
(canonical-foundations)

** Also affects: openjdk-6 (Ubuntu Precise)
   Importance: High
     Assignee: Canonical Foundations Team (canonical-foundations)
       Status: Confirmed

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https://bugs.launchpad.net/bugs/887077

Title:
  alternatives are not updated to new paths

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