Gatekeeper Bypass for App

gatekeeper-yourappname.mobileconfig

<?xml version="1.0" encoding="UTF-8"?>
<!DOCTYPE plist PUBLIC "-//Apple//DTD PLIST 1.0//EN" "http://www.apple.com/DTDs/PropertyList-1.0.dtd">
<plist version="1.0">
<dict>
    <key>PayloadContent</key>
    <array>
        <dict>
            <key>PayloadDescription</key>
            <string>Configures Gatekeeper to allow YourAppNameHere</string>
            <key>PayloadDisplayName</key>
            <string>System Policy Rule</string>
            <key>PayloadIdentifier</key>
            <string>com.apple.systempolicy.rule.USE-UUIDGEN-TO-GENERATE</string>
            <key>PayloadType</key>
            <string>com.apple.systempolicy.rule</string>
            <key>PayloadUUID</key>
            <string>USE-UUIDGEN-TO-GENERATE</string>
            <key>PayloadVersion</key>
            <integer>1</integer>
            <key>Requirement</key>
            <string>YourCodeRequirementFromApp</string>
            <key>OperationType</key>
            <string>operation:execute</string>
            <key>Priority</key>
            <real>100.0</real>
            <key>Comment</key>
            <string>Adium - OperationType: operation:execute</string>
        </dict>
    </array>
    <key>PayloadDisplayName</key>
    <string>Gatekeeper: YourAppNameHere</string>
    <key>PayloadIdentifier</key>
    <string>com.yourbundle.USE-UUIDGEN-TO-GENERATE</string>
    <key>PayloadOrganization</key>
    <string>YourOrgName</string>
    <key>PayloadScope</key>
    <string>System</string>
    <key>PayloadType</key>
    <string>Configuration</string>
    <key>PayloadUUID</key>
    <string>USE-UUIDGEN-TO-GENERATE</string>
    <key>PayloadVersion</key>
    <integer>1</integer>
</dict>
</plist>

If trying to work with a modified app bundle, re-sign the app bundle with codesign and your own Developer ID, then package and deploy the app via an MDM, along with this configuration profile.

codesign -f -s <identity> --timestamp=none /path/YourAppHere.app

Important: Get the code requirement for the configuration profile after re-signing the app bundle. :)