Thanks Meter 187
Join Date: May 2010
Location: Metro NY/NE Region
Something isn't right? I'm afraid that you need to start al over - learn ADB and forget about those Toolkit(s) unless that are specific & updated for 4.4.3 compliance. Mine is a 2012 WiFi model with 32 GB, internal storage/total space is 27.58 GB and even with apps & pix, video, etc. on the SDcard, and Apps taking up space, I have 19.1GB available.
First, might I suggest that you upgrade/try the newest recovery - either CWM or TWRP (using 188.8.131.52 on mine) to install - doing a full wipe & factory reset is best way/recommended AND yes, time-consuming, but you get it "right" almost every time - wipe three (3) times each - dalvik cache, cache and factory reset/full wipe. Then, re-flash your factory rom/image file - be patient, as it will take 5 to 10 minutes for it to finish, take a break or whatever. When it's done & without error/abort message, reboot the device & let it settle for a little while after configuring WiFi as those download Apps and update could take a while if your mobile data plan is limited. Personally, I'm "biased" toward TWRP and I don't have to deal with MD5 check/error message that pop out of nowhere with CWM.
If everything works as planned, you will be shown the Setup Menu to configure - profit & enjoy, check the storage size (you can see what's taking up the space) then, restore your Google Account with the Apps, and reboot when finished.
Good luck & let us know your progress or results.
Google Nexus 5 - 4.4.4 KTU84P - x 2 in black & white: T-Mo 4G
Asus 2012 Nexus 7 32GB WiFi, 4.4.4 BSZKitKat v1.6
Moto Atrix 4G MROM: Peoples-AT&T/T-Mo 3G+WiFi
HTC Incredible 2 unlocked S-OFF CWM 5.x HB.97 (6.13.1002) SR's Zeus R1.3, Sense v5.0.m
Viewsonic Vpad7-CWM 5.x EUv1.7b ITE Rom 2.2.2 hw107, A2SD, 3G+WiFi
HTC Droid Eris-GB 2.3.5 CM7 V.24RIP-Vanila-ICS, WiFi only
HTC Ozone (unlocked GSM+CDMA) 3VO ROM: WinMo 6.5: CMHK/CN+
Sony E. W995 CID53Red, R1HA036 generic, C905 custpack