I going to try and help you out doing this logically.
The question is, Did they work before? What have you done to the car recently? Using a ohm meter will show a short unless you remove all the bulbs to open the circuit.
So, The orange wire from the fuse box is constant "hot" and feeds the following; Courtesy lights, Headlights, Trunk light (if you have one), Stop lights, and finally the Glove box light (if you have one).
With the fuse popping as soon as you put it in, there is definitely a short. You say you have disconnected the brake light switch and it still blows. Leave this disconnected. This will eliminate that circuit.
Next, disconnect the courtesy light connector, this is on the driver side under the dash. It will have both a white and a orange wire. Leave it disconnected, for the time being. Replace the fuse and see if it blows. If it does...then we'll move on. If not, your short is in that circuit.
Next disconnect the glove box light, there should be a single connector with an orange wire to the left of the glove box, just follow the wire from the light, and disconnect. Replace the fuse and see if it blows. If it does, we move on. If not, your short is in that circuit.
Pull back the carpet on the driver side floor and disconnect the ribbon strip wire. This goes to the rear lights and trunk light. Replace the fuse and see if it blows. If it does, we move on. If not, your short is in that circuit.
If after disconnecting those three connectors, and replacing the fuse and it still blows...You have a short in the main dash harness. Look for any pinched sections of the harness or anything that has been screwed into the harness or has rubbed (chafed) through the harness. Once you find the short and fix it, you can reconnect the previously disconnected connectors, one at a time watching for the fuse to blow.
Hope this helps.
'68 CJ-5 - Sold