Appearance and Geometry behavior on CloneTree

Hi guys.. I have a difficulty in understanding how Appearance and Geometry behave on CloneTree. I hope somebody here can help me.
I have a BranchGroup BG with a total 4 Shape3D's contained in it. When I created those Shape3Ds, I've made sure that their Geometry and Appearance has getDuplicateOnCloneTree()=true. In addition, those Shape3D share the same Appearance (but not Geometry). Also, I have set the capabilities as follows
obj.setCapability(Shape3D.ALLOW_APPEARANCE_READ);
obj.setCapability(Shape3D.ALLOW_APPEARANCE_WRITE);
obj.setCapability(Shape3D.ALLOW_GEOMETRY_WRITE);
obj.setCapability(Shape3D.ALLOW_GEOMETRY_READ);Next, I cloned that BranchGroup using
BranchGroup cloneBG = new BranchGroup();//clone
cloneBG = (BranchGroup) BG.cloneTree();Until this point everything goes well. Total of 8 Shape3D is rendered correctly. Next, I tried to change the Color of Geometry, using
((GeometryArray) Shape1.getGeometry()).setColors(int index,
                      Color3f[] colors);of one of those Shape3D (say Shape1). From what I've learnt, those Geometry is referenced when BG is cloned. So, this change will affect the other Shape3D which shared the same Geometry. This is actually what happened then, where 2 of my Shape3D has its color changed (Shape1 and its clone).
The problem comes when I tried change the appearance, using
Shape1.setAppearance(Appearance appearance).
Shape1 has its appearance changed, but its clone doesn't.
Any clue?
Regards,
-danurwenda

Sorry guys,, it's entirely my fault. The appearance is indeed referenced, not duplicated. So it makes sense that the clone remains unchanged.
Having realized this, I got another problem. I want to assign 4 appearances, one for each of those Shape3D. I want the clones affected by this change, too. If I use setAppearance() to the original Shape3D, surely it won't work. Any suggestion?

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    EtreCheck version: 2.1.8 (121)
    Report generated 13 February 2015 15:33:46 GMT
    Download EtreCheck from http://etresoft.com/etrecheck
    Click the [Click for support] links for help with non-Apple products.
    Click the [Click for details] links for more information about that line.
    Hardware Information: ℹ️
        Mac mini (Late 2012) (Technical Specifications)
        Mac mini - model: Macmini6,1
        1 2.5 GHz Intel Core i5 CPU: 2-core
        4 GB RAM Upgradeable
            BANK 0/DIMM0
                2 GB DDR3 1600 MHz ok
            BANK 1/DIMM0
                2 GB DDR3 1600 MHz ok
        Bluetooth: Good - Handoff/Airdrop2 supported
        Wireless:  en1: 802.11 a/b/g/n
    Video Information: ℹ️
        Intel HD Graphics 4000
            LG TV spdisplays_1080p
    System Software: ℹ️
        OS X 10.10.2 (14C109) - Time since boot: 0:11:35
    Disk Information: ℹ️
        APPLE HDD ST500LM012 disk0 : (500.11 GB)
            EFI (disk0s1) <not mounted> : 210 MB
            Macintosh HD (disk0s2) / : 499.25 GB (398.54 GB free)
            Recovery HD (disk0s3) <not mounted>  [Recovery]: 650 MB
    USB Information: ℹ️
        Apple Inc. BRCM20702 Hub
            Apple Inc. Bluetooth USB Host Controller
        Apple, Inc. IR Receiver
    Thunderbolt Information: ℹ️
        Apple Inc. thunderbolt_bus
    Configuration files: ℹ️
        /etc/sysctl.conf - Exists
    Gatekeeper: ℹ️
        Mac App Store and identified developers
    Kernel Extensions: ℹ️
            /Applications/AVG AntiVirus.app
        [loaded]    com.avg.Antivirus.OnAccess.kext (2015.0 - SDK 10.8) [Click for support]
    Launch Agents: ℹ️
        [running]    com.avg.Antivirus.gui.plist [Click for support]
    Launch Daemons: ℹ️
        [loaded]    com.adobe.fpsaud.plist [Click for support]
        [running]    com.avg.Antivirus.infosd.plist [Click for support]
        [running]    com.avg.Antivirus.services.plist [Click for support]
    User Login Items: ℹ️
        iTunesHelper    Application  (/Applications/iTunes.app/Contents/MacOS/iTunesHelper.app)
    Internet Plug-ins: ℹ️
        Silverlight: Version: 5.1.30514.0 - SDK 10.6 [Click for support]
        FlashPlayer-10.6: Version: 16.0.0.305 - SDK 10.6 [Click for support]
        Flash Player: Version: 16.0.0.305 - SDK 10.6 [Click for support]
        QuickTime Plugin: Version: 7.7.3
        Default Browser: Version: 600 - SDK 10.10
    3rd Party Preference Panes: ℹ️
        Flash Player  [Click for support]
    Time Machine: ℹ️
        Time Machine not configured!
    Top Processes by CPU: ℹ️
             5%    WindowServer
             1%    AVG
             0%    AppleSpell
             0%    fontd
             0%    cloudpaird
    Top Processes by Memory: ℹ️
        215 MB    com.apple.WebKit.WebContent
        125 MB    avgd
        107 MB    Safari
        90 MB    Messages
        69 MB    WindowServer
    Virtual Memory Information: ℹ️
        171 MB    Free RAM
        1.68 GB    Active RAM
        1.53 GB    Inactive RAM
        637 MB    Wired RAM
        1.34 GB    Page-ins
        2 MB    Page-outs
    Diagnostics Information: ℹ️
        Feb 13, 2015, 03:20:28 PM    Self test - passed
        Feb 6, 2015, 08:08:07 PM    /Library/Logs/DiagnosticReports/Kernel_2015-02-06-200807_[redacted].panic [Click for details]

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