[One (M7) General] Akropolis:
I did not use ROMcleaner. I changed the txt file and put '/system/app' in front of the .apk file (so you get the full path). Then remove all comment (#) from the file. so your file looks something like this:

/system/app/10626_HTCCN_WO_3G_FHD2.apk
/system/app/116114.apk
/system/app/AlipayMSP.apk
/system/app/AlipayNFC.apk
/system/app/amap.apk
/system/app/AMapNetworkLocation.apk
/system/app/baidusearch.apk
/system/app/CIMETPCHS.apk
/system/app/CIMETPCHT.apk
/system/app/CMBEWallet.apk
/system/app/CMBMobileBank.apk
/system/app/CN_MyHTC.apk
/system/app/ctrip.apk
/system/app/DianPing.apk
/system/app/DoubanFM.apk
/system/app/HTCCNGamehall.apk
/system/app/HTCCN_FileManager.apk
/system/app/HTCCN_iReader.apk
/system/app/HTCCN_Meituxiuxiu_pintu.apk
/system/app/HTCCN_Voice.apk
/system/app/HTCMarket.apk
/system/app/HtcSpeakIFLY.apk
/system/app/HtcSpeak_HFM.apk
/system/app/HTCVideos.apk
/system/app/iFlyVoiceDictation.apk
/system/app/LeTVPlayer.apk
/system/app/mapbar.apk
/system/app/MyVDisk.apk
/system/app/NFCAppCenter.apk
/system/app/PhoneMail.apk
/system/app/QIYIVideoPlayer.apk
/system/app/QM.apk
/system/app/QQ2012.apk
/system/app/QQVideoPlayer.apk
/system/app/QunarNfc.apk
/system/app/Sina_Weibo_FSPlugin.apk
/system/app/Speech_Service_iFLY.apk
/system/app/Stock_China.apk
/system/app/TencentNews.apk
/system/app/Tencent_Wechat_FSPlugin.apk
/system/app/unicomclient_HTCT328W.apk
/system/app/VAC.apk
/system/app/VDisk.apk
/system/app/vegetable.apk
/system/app/WangPiaoPlugin.apk
/system/app/Weibo.apk
/system/app/weixin.apk
/system/app/WoStore.apk
/system/lib/libPSKUser.so
/system/lib/libdpobj.so
/system/lib/libnh.so
/system/lib/libBslib.so
/system/lib/liblocSDK3.so
/system/lib/libAisound.so
/system/lib/libamapmapgv10.so
/system/lib/libmbsutils.so
/system/lib/libminimaphtc320.so
/system/lib/libmscamap.so
/system/lib/libtbt.so
/system/lib/libffmpeg_jni_qiyi_NORMAL_neon.so
/system/lib/libffmpeg_jni_qiyi_NORMAL_vfp.so
/system/lib/libffmpeg_qiyi_neon.so
/system/lib/libffmpeg_qiyi_vfp.so
/system/lib/libpkcs-util.so
/system/lib/libctripmsc.so
/system/lib/libentry.so
/system/lib/liblocSDK3.so
/system/lib/libminimapv320.so
/system/lib/libbds.so
/system/lib/libBDVoiceRecognitionClient_V1.so
/system/lib/liblocSDK_2.4.so
/system/lib/libloginshare.so
/system/lib/libshare.so
/system/lib/libpbpinyin.so
/system/lib/libtmfe30.so
/system/lib/libBMapApiEngine_v1_3_5.so
/system/lib/libqunarlib_2_0_1.so
/system/lib/libutility.so
/system/lib/libBMapApiEngine_v1_3_3.so
/system/lib/liblocSDK3.so
/system/lib/libAitalk.so
/system/lib/libcashier.so
/system/lib/libmapbar_search.so
/system/lib/libmapbar_tts.so
/system/lib/libmaprender3.so
/system/lib/libNativeNavi.so
/system/lib/libcrashreport.so
/system/lib/libexport.so
/system/lib/libexport_neon.so
/system/lib/libgetproperty.so
/system/lib/libhttpproxy.so
/system/lib/libpi.so
/system/lib/libsemaphore.so
/system/lib/libsta_jni.so
/system/lib/libtclog.so
/system/lib/libupdate.so
/system/lib/libamrnb.so
/system/lib/libaudiohelper.so
/system/lib/libcodecwrapper.so
/system/lib/liblbs.so
/system/lib/libmsfboot.so
/system/lib/libnativeencrypt.so
/system/lib/libsnapcore.so
/system/lib/libTencentVideoCommon.so
/system/lib/libVideoCtrl.so
/system/lib/libdict.so
/system/lib/libem_aisound5.so
/system/lib/libem_aitalk3.so
/system/lib/libem_aitalk4.so
/system/lib/libem_aitalk5.so
/system/lib/libem_ivw.so
/system/lib/libem_msc.so
/system/lib/libem_vad.so
/system/lib/libem_vad2.so
/system/lib/libAmmCommon.so
/system/lib/libcdntran.so
/system/lib/libImgTools.so
/system/lib/libmmdb.so
/system/lib/libMMProtocalJni.so
/system/lib/libQAFP.so
/system/lib/libQrcodeDecoder.so
/system/lib/libSync.so
/system/lib/libvoice.so
/system/lib/libvoipCodec.so
/system/lib/libvoipCodec_v5.so
/system/lib/libvoipMain.so
/system/lib/libvprotocal.so
/system/lib/libwhatsnew.so
/system/lib/libgeo_gc.so
/system/lib/libminimapv300.so
/system/customize/resource/CU_bootup_animation.zip
/system/customize/resource/CU_bootup_music.mp3
/system/customize/resource/CU_shutdown_animation.zip
/system/customize/resource/CU_shutdown_music.mp3

In Windows creating a file seems to go wrong. You can download mine (attachment). Don't edit it!

Boot your phone in CWM recovery. On your pc push the file to whatever on the phone.

adb push file.txt /sdcard

Open a shell on your phone:

adb shell

Be sure you are root

Mount system:

mount /system

Then execute the following (be sure you have a backup before doing this!):

for i in $(cat /sdcard/file.txt); do rm ${i}; done

You're done! Don't know if this is the most elegant way, but it worked for me. Have a pretty clean 4.2 ROM atm.