[HTC Desire S] b3by:
Two days ago I "S-OFFed" my DS, and rooted it with Gingerbreak. Everything worked like a charm.

Now, I found a way to remove native apps via adb.

Using ClockworkMod Recovery, I turn my phone into recovery mode, and in a terminal i write:

./adb shell
mount /system
cd /system/app
rm -f app_name.*

This way I removed, for instance, Stock application, or AmazonMp3, or FriendStream. By the way, there are still a lot of application signed by HTC that I don't know. Does someone can tell me what is all this stuff? What can I remove and what must I keep?

For instance, I was looking for mirror application and reader application, without success :(

cd /system/app
ls
AccountSyncManager.apk HtcProfileWidget.odex
AccountSyncManager.odex HtcRecommends.apk
AdobeReader.apk HtcRecommends.odex
AppSharing.apk HtcRecommendsWidget.apk
AppSharing.odex HtcRecommendsWidget.odex
ApplicationsProvider.apk HtcRingtoneTrimmer.apk
ApplicationsProvider.odex HtcRingtoneTrimmer.odex
BlackBoard.apk HtcRingtoneWidget.apk
Bluetooth.apk HtcRingtoneWidget.odex
Bluetooth.odex HtcScreenBrightnessWidget.apk
BrcmBluetoothServices.apk HtcScreenBrightnessWidget.odex
BrcmBluetoothServices.odex HtcScreenTimeoutWidget.apk
Browser.apk HtcScreenTimeoutWidget.odex
Browser.odex HtcSettingsProvider.apk
CSPeopleSyncService.apk HtcSettingsProvider.odex
CSPeopleSyncService.odex HtcSoundRecorder.apk
Calculator.apk HtcSoundRecorder.odex
Calculator.odex HtcSoundSetDownloadManager.apk
Calendar.apk HtcSoundSetDownloadManager.odex
Calendar.odex HtcStreamPlayer.apk
CalendarProvider.apk HtcStreamPlayer.odex
CalendarProvider.odex HtcSyncwidget.apk
CertInstaller.apk HtcSyncwidget.odex
CertInstaller.odex HtcTipWidget.apk
CheckinProvider.apk HtcTipWidget.odex
CheckinProvider.odex HtcTwitter.apk
ContactsProvider.apk HtcTwitter.odex
ContactsProvider.odex HtcWeatherWallpaper.apk
CustomizationSettingsProvider.apk HtcWeatherWallpaper.odex
CustomizationSettingsProvider.odex LiveWallpapers.apk
CustomizationSetup.apk LiveWallpapers.odex
CustomizationSetup.odex LiveWallpapersPicker.apk
DCSImpl.apk LiveWallpapersPicker.odex
DCSImpl.odex LocationPickerLaputa.apk
DCSStock.apk LocationPickerLaputa.odex
DCSStock.odex MagicSmokeWallpapers.apk
DCSUtility.apk MagicSmokeWallpapers.odex
DCSUtility.odex Mail.apk
DFPI.apk Mail.odex
DFPI.odex Maps.apk
DebugTool.apk MarketUpdater.apk
DefaultContainerService.apk MediaProvider.apk
DefaultContainerService.odex MediaProvider.odex
DownloadProvider.apk MediaUploader.apk
DownloadProvider.odex MessageTabPlugin.apk
DownloadProviderUi.apk MessageTabPlugin.odex
DownloadProviderUi.odex Metal.apk
DrmProvider.apk Mms.apk
DrmProvider.odex Mms.odex
EReader.apk Mode10Wallpapers.apk
EReader.odex Mode10Wallpapers.odex
EReaderWidget.apk MyHTC.apk
EReaderWidget.odex MyHTC.odex
Facebook.apk MyReportAgent.apk
FieldTest.apk MyReportAgent.odex
FilePicker.apk NetworkLocation.apk
FilePicker.odex OnlineAssetDetails.apk
FlashLitePlugin.apk OnlineAssetDetails.odex
FlashLitePlugin.odex PCSCII.apk
Flashlight.apk PCSCII.odex
Flashlight.odex PackageInstaller.apk
Flickr.apk PackageInstaller.odex
Flickr.odex Phone.apk
GSD.apk Phone.odex
GSD.odex PicoTts.apk
GenieWidget.apk PicoTts.odex
Gmail.apk PluginManager.apk
GoogleBackupTransport.apk PluginManager.odex
GoogleCalendarSyncAdapter.apk Protips.apk
GoogleContactsSyncAdapter.apk Protips.odex
GoogleFeedback.apk QuickLookup.apk
GooglePartnerSetup.apk QuickLookup.odex
GoogleQuickSearchBox.apk Quickoffice.apk
GoogleServicesFramework.apk Rosie.apk
HTCAlbum.apk Rosie.odex
HTCAlbum.odex Settings.apk
HTCCamera.apk Settings.odex
HTCCamera.odex SettingsProvider.apk
HTCSetupWizard.apk SettingsProvider.odex
HTCSetupWizard.odex SetupWizard.apk
HTC_IME.apk SkinPicker.apk
HTC_IME.odex SkinPicker.odex
HTMLViewer.apk Slate.apk
HTMLViewer.odex SoundHound_Freemium.apk
HtcAddProgramWidget.apk SoundRecorder.apk
HtcAddProgramWidget.odex SoundRecorder.odex
HtcAutoRotateWidget.apk Stk.apk
HtcAutoRotateWidget.odex Stk.odex
HtcBackgroundDataWidget.apk Street.apk
HtcBackgroundDataWidget.odex Superuser.apk
HtcCalculatorWidget.apk SystemUI.apk
HtcCalculatorWidget.odex SystemUI.odex
HtcClockWidget.apk Talk.apk
HtcClockWidget.odex TelephonyProvider.apk
HtcCompressViewer.apk TelephonyProvider.odex
HtcCompressViewer.odex Transfer-saga-8.20.0.13-S21.apk
HtcConnectedMedia.apk TtsService.apk
HtcConnectedMedia.odex TtsService.odex
HtcContacts.apk Twitter.apk
HtcContacts.odex Updater.apk
HtcCopyright.apk Updater.odex
HtcDLNAMiddleLayer.apk UpgradeSetup.apk
HtcDLNAMiddleLayer.odex UpgradeSetup.odex
HtcDMC.apk UploadProvider.apk
HtcDMC.odex UploadProvider.odex
HtcDataRoamingWidget.apk UserDictionaryProvider.apk
HtcDataRoamingWidget.odex UserDictionaryProvider.odex
HtcDataStripWidget.apk Vending.apk
HtcDataStripWidget.odex VisualizationWallpapers.apk
HtcDialer.apk VisualizationWallpapers.odex
HtcDialer.odex VoiceSearch.apk
HtcDirect.apk VpnServices.apk
HtcDirect.odex VpnServices.odex
HtcDirectDownloadsProvider.apk Weather.apk
HtcDirectDownloadsProvider.odex Weather.odex
HtcFMRadio.apk WeatherAgentService.apk
HtcFMRadio.odex WeatherAgentService.odex
HtcFacebook.apk WeatherProvider.apk
HtcFacebook.odex WeatherProvider.odex
HtcFeedback.apk WeatherSyncProvider.apk
HtcFeedback.odex WeatherSyncProvider.odex
HtcGreader.apk WifiRouter.apk
HtcGreader.odex WifiRouter.odex
HtcGreaderWidget.apk Wood.apk
HtcGreaderWidget.odex WorldClock.apk
HtcHubSyncProvider.apk WorldClock.odex
HtcHubSyncProvider.odex YouTube.apk
HtcImageWallpaper.apk com.htc.FMRadioWidget.apk
HtcImageWallpaper.odex com.htc.FMRadioWidget.odex
HtcLaputa.apk com.htc.MusicWidget.apk
HtcLaputa.odex com.htc.MusicWidget.odex
HtcLaputaInstaller.apk com.htc.TrendsWidget.apk
HtcLaputaInstaller.odex com.htc.TrendsWidget.odex
HtcLaputaWidget.apk com.htc.TwitterWidget.apk
HtcLaputaWidget.odex com.htc.TwitterWidget.odex
HtcLocationService.apk com.htc.WeatherWidget.apk
HtcLocationService.odex com.htc.WeatherWidget.odex
HtcLockScreen.apk htcbookmarkwidget.apk
HtcLockScreen.odex htcbookmarkwidget.odex
HtcMessageCS.apk htccalendarwidgets.apk
HtcMessageCS.odex htccalendarwidgets.odex
HtcMessageProvider.apk htccontactwidgets.apk
HtcMessageProvider.odex htccontactwidgets.odex
HtcMessageUploader.apk htcmailwidgets.apk
HtcMessageUploader.odex htcmailwidgets.odex
HtcMusic.apk htcmsgwidgets.apk
HtcMusic.odex htcmsgwidgets.odex
HtcMusicMarkedItems.apk htcsettingwidgets.apk
HtcMusicMarkedItems.odex htcsettingwidgets.odex
HtcPhotoWidget.apk install_flash_player.apk
HtcPhotoWidget.odex restartapp.apk
HtcPowerStripWidget.apk restartapp.odex
HtcPowerStripWidget.odex teeter.apk
HtcProfileWidget.apk teeter.odex

Thank you :)