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Great news!
Bartender 3 has just been released, it's fully compatible with macOS High Sierra (and macOS Sierra) and does not need the below steps performed.

We recommend all users should update to Bartender 3 for FREE, if you have a Bartender 2 license.

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OS X El Capitan introduced a new Security Feature called System Integrity Protection. With System Integrity Protection Bartender 1 needs additional setup steps performed before it can control Apple menu bar items such as Notification Center, Battery, WiFi etc. Bartender 1 can still control menu bar apps fine, without these additional steps.

Unfortunately we cannot automate all of the setup and Bartender 1 will need you to temporarily disable System Integrity Protection to allow it to install its System Item control component, System integrity Protection can then be re-enabled.

Apple have made the steps to temporarily disable SIP quite difficult, so we now recommend only performing these steps if you really must control Apple Menu Items with Bartender 1

Please follow the instructions below to allow Bartender 1 to control System Items.
(You may wish to print these instructions or open them on another device as you will be restarting OS X).

First you will need to Reboot into OS X's Recovery Mode to Disable System Integrity Protection, to do this:

• Restart your Mac, and as soon as the screen turns black hold down until the Apple logo appears on your screen.
  You will know you if you have successfully entered Recovery Mode when the desktop looks like the screenshot below.
  
  
• Now click on the "Utilities" menu, and then "Terminal".
  
  
  
  
• In the Terminal Window that opens type:
  
  csrutil disable
  
  It may be worth writing the above command down to remember it when in Recovery Mode.
  
  Then press the return key, you should then see the following message
  
  
  
  
• Restart OS X, your Mac should then restart as normal with SIP disabled, login and launch Bartender 1, if System Integrity Protection is turned off as it should now be it will ask to install its System Component, press "Continue", you will be prompted for your password.
  

You can now re-enable System Integrity Protection, to do this:

• Restart OS X, as soon as the screen turns black hold down until the Apple logo appears on your screen.
• Now click on the "Utilities" menu, and then "Terminal".
• In the Terminal Window that opens type:
  
  csrutil enable
  
  It may be worth writing the above command down to remember it when in Recovery Mode.
  
  Then press the return key, you should then see the following message
  
  
  
  
• Restart OS X, Your Mac should then restart as normal.

Congratulations, Bartender 1 can now control System Items and System Integrity Protection is enabled.