I have run novice example 5 (N05)and have agreement up to run 9.  Then, my
results vary accordingly:

(Geant4 2.0 bundled output)
### Run 9 start.
>>> Event 0
     22 hits are stored in EM ExN05CalorimeterHitsCollection.
     Total energy deposition in EM calorimeter crytals : 0.9939 (GeV)
     1 hits are stored in HAD ExN05CalorimeterHitsCollection.
     Total energy deposition in HAD calorimeter towers : 0.0056358 (GeV)
>>> Event 1
     19 hits are stored in EM ExN05CalorimeterHitsCollection.
     Total energy deposition in EM calorimeter crytals : 0.99466 (GeV)
     0 hits are stored in HAD ExN05CalorimeterHitsCollection.
     Total energy deposition in HAD calorimeter towers : 0 (GeV)
>>> Event 2
     23 hits are stored in EM ExN05CalorimeterHitsCollection.
     Total energy deposition in EM calorimeter crytals : 0.99342 (GeV)
     2 hits are stored in HAD ExN05CalorimeterHitsCollection.
     Total energy deposition in HAD calorimeter towers : 0.0048977 (GeV)
>>> Event 3
     25 hits are stored in EM ExN05CalorimeterHitsCollection.
     Total energy deposition in EM calorimeter crytals : 0.99585 (GeV)
     1 hits are stored in HAD ExN05CalorimeterHitsCollection.
     Total energy deposition in HAD calorimeter towers : 0.0024477 (GeV)
>>> Event 4
     22 hits are stored in EM ExN05CalorimeterHitsCollection.
     Total energy deposition in EM calorimeter crytals : 0.99564 (GeV)
     2 hits are stored in HAD ExN05CalorimeterHitsCollection.
     Total energy deposition in HAD calorimeter towers : 0.0018529 (GeV)
number of event = 5


(My output run on 1GHz Pentium3, 512Mb RAM)
### Run 9 start.
>>> Event 0
     24 hits are stored in EM ExN05CalorimeterHitsCollection.
     Total energy deposition in EM calorimeter crytals : 0.99979 (GeV)
     0 hits are stored in HAD ExN05CalorimeterHitsCollection.
     Total energy deposition in HAD calorimeter towers : 0 (GeV)
>>> Event 1
     25 hits are stored in EM ExN05CalorimeterHitsCollection.
     Total energy deposition in EM calorimeter crytals : 0.99873 (GeV)
     0 hits are stored in HAD ExN05CalorimeterHitsCollection.
     Total energy deposition in HAD calorimeter towers : 0 (GeV)
>>> Event 2
     22 hits are stored in EM ExN05CalorimeterHitsCollection.
     Total energy deposition in EM calorimeter crytals : 0.99239 (GeV)
     0 hits are stored in HAD ExN05CalorimeterHitsCollection.
     Total energy deposition in HAD calorimeter towers : 0 (GeV)
>>> Event 3
     19 hits are stored in EM ExN05CalorimeterHitsCollection.
     Total energy deposition in EM calorimeter crytals : 0.99992 (GeV)
     0 hits are stored in HAD ExN05CalorimeterHitsCollection.
     Total energy deposition in HAD calorimeter towers : 0 (GeV)
>>> Event 4
     22 hits are stored in EM ExN05CalorimeterHitsCollection.
     Total energy deposition in EM calorimeter crytals : 0.9999 (GeV)
     0 hits are stored in HAD ExN05CalorimeterHitsCollection.
     Total energy deposition in HAD calorimeter towers : 0 (GeV)
number of event = 5
#
Graphics systems deleted.
VisManager deleting.

How severe of a problem is this?