[Android Q&A, Help & Troubleshooting] marekboss:
I finally found a way to completely remove stock (lidroid) toggles :p (tested on Omega v15 and WanamLite v3.5 Jelly Bean 4.1.2, Windows XP SP3 32-bit)

1. downloaded and installed Java SE jdk-7u17-windows-i586.exe + jre-7u17-windows-i586.exe

2. downloaded and extracted in 7-Zip apktool1.5.2.tar.bz2 + apktool-install-windows-r05-ibot.tar.bz2 and moved the resulting files (apktool.jar + aapt.exe, apktool.bat) to a folder F:\apktool

3. downloaded and extracted in 7-Zip Omega v15 or WanamLite v3.5 ROM and moved framework-res.apk (...\system\framework) + SystemUI.apk (...\system\app) files to a folder F:\apktool

4. run "cmd"

Microsoft Windows XP [5.1.2600]
(C) Copyright 1985-2001 Microsoft Corp.

F:\Documents and Settings\Marek>cd \apktool

F:\apktool>[B]apktool if framework-res.apk[/B]
I: Framework installed to: F:\Documents and Settings\Marek\apktool\framework\1.apk

F:\apktool>[B]apktool d SystemUI.apk decompiled_SystemUI[/B]
I: Baksmaling...
I: Loading resource table...
I: Loaded.
I: Decoding AndroidManifest.xml with resources...
I: Loading resource table from file: F:\Documents and Settings\Marek\apktool\framework\1.apk
I: Loaded.
I: Regular manifest package...
I: Decoding file-resources...
I: Decoding values */* XMLs...
I: Done.
I: Copying assets and libs...

F:\apktool>

5. open the:

tw_status_bar_expanded_header.xml from F:\apktool\decompiled_SystemUI\res\layout

and copy: (red text)

<LinearLayout android:gravity="center_vertical" android:orientation="horizontal" android:background="#ff000000" android:layout_width="fill_parent" android:layout_height="[B][COLOR="Red"]39.0dip[/COLOR][/B]" android:baselineAligned="false"

6. open the:

dimens.xml from F:\apktool\decompiled_SystemUI\res\values

original:

<dimen name="notification_panel_quicksettingbtn_height">128.0dip</dimen>

and paste: (red text)

<dimen name="notification_panel_quicksettingbtn_height">[B][COLOR="Red"]39.0dip[/COLOR][/B]</dimen>

7. open the: for stock toggles

tw_status_bar_expanded.xml from F:\apktool\decompiled_SystemUI\res\layout

original:

<com.android.systemui.statusbar.policy.quicksetting.QuickSettingPanel android:orientation="horizontal" android:id="@id/quicksetting_container" android:layout_width="wrap_content" android:layout_height="wrap_content" android:divider="@drawable/tw_black_bg" android:showDividers="middle" />

change on: (red text)

<com.android.systemui.statusbar.policy.quicksetting.QuickSettingPanel android:orientation="horizontal" android:id="@id/quicksetting_container" android:layout_width="wrap_content" android:layout_height="[B][COLOR="Red"]0.0dip[/COLOR][/B]" android:divider="@drawable/tw_black_bg" android:showDividers="middle" />

7. open the: for lidroid toggles

tw_status_bar_expanded.xml from F:\apktool\decompiled_SystemUI\res\layout

original:

<com.wanam.systemui.quickpanel.PowerWidget android:id="@id/exp_power_stat" android:layout_width="wrap_content" android:layout_height="@dimen/quick_setting_button_height" android:layout_marginTop="@dimen/tw_notification_panel_header_height" />

change on: (red text)

<com.wanam.systemui.quickpanel.PowerWidget android:id="@id/exp_power_stat" android:layout_width="wrap_content" android:layout_height="[B][COLOR="Red"]0.0dip[/COLOR][/B]" android:layout_marginTop="@dimen/tw_notification_panel_header_height" />

8. open the: (for remove "No notification" notice) thanks to joehanh88

tw_status_bar_expanded.xml from F:\apktool\decompiled_SystemUI\res\layout

original:

<TextView android:textSize="@dimen/status_bar_expanded_notification_category_text_size" android:textStyle="bold" android:textColor="@color/notification_category_color" android:gravity="left|center" android:id="@id/noNotificationsText" android:paddingLeft="11.0dip" android:layout_width="fill_parent" android:layout_height="@dimen/status_bar_expanded_notification_category_height" android:text="@string/status_bar_no_notifications_title" />

change on: (red text)

<TextView android:textSize="@dimen/status_bar_expanded_notification_category_text_size" android:textStyle="bold" android:textColor="@color/notification_category_color" android:gravity="left|center" android:id="@id/noNotificationsText" android:paddingLeft="11.0dip" android:layout_width="fill_parent" android:layout_height="[B][COLOR="Red"]0.0dip[/COLOR][/B]" android:text="@string/status_bar_no_notifications_title" />

9. open the: (for remove "Ongoing" notice) thanks to joehanh88

tw_status_bar_expanded.xml from F:\apktool\decompiled_SystemUI\res\layout

original:

<LinearLayout android:orientation="vertical" android:id="@id/onGoingCart" android:background="#ff293945" android:focusable="true" android:visibility="gone" android:layout_width="fill_parent" android:layout_height="@dimen/status_bar_expanded_notification_category_height">

change on: (red text)

<LinearLayout android:orientation="vertical" android:id="@id/onGoingCart" android:background="#ff293945" android:focusable="true" android:visibility="gone" android:layout_width="fill_parent" android:layout_height="[B][COLOR="Red"]0.0dip[/COLOR][/B]">

10. save the modified *.xml files

11. again into "cmd"

F:\apktool>[B]apktool b decompiled_SystemUI SystemUI_recompiled.apk[/B]
I: Checking whether sources has changed...
I: Smaling...
I: Checking whether resources has changed...
I: Building resources...
I: Building apk file...

F:\apktool>

12. opened in WinRAR original SystemUI.apk and copy to PC folder META-INF folder and AndroidManifest.xml file

13. opened in WinRAR modified SystemUI_recompiled.apk and from PC folder copy -> paste META-INF folder and AndroidManifest.xml file

14. rename SystemUI_recompiled.apk on SystemUI.apk and move to phone...

15. through RootExplorer move SystemUI.apk to /system/app and replace original SystemUI.apk

16. restart phone... :p