The Molecular Level

The Molecular Level is a main story quest and achievement/trophy in Fallout 4.

Quick walkthrough
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 * data1=Talk to Proctor Ingram.|class=va-chart-body}
 * data2=Talk to Sturges.
 * data3=Talk to Tinker Tom.|class=va-chart-body}}

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 * data1=Build the Reflector Platform.|class=va-chart-body}
 * data2=Build the Reflector Platform.
 * data3=Build the Reflector Platform

Detailed walkthrough
Before the Sole Survivor can utilize the freshly acquired Courser chip, it needs to be analyzed by someone familiar with the Institute technology. The best person for the job happens to be Tinker Tom from the Railroad.
 * Note: If the Sole Survivor hasn't encountered the Railroad yet, follow the Road to Freedom to find the hidden Railroad HQ and talk to Desdemona.

Alternatively, if the Survivor already met or is a member of the Railroad, head to Railroad HQ. Speak to Desdemona and agree to her terms. Give the Courser chip to Tinker Tom, who will crack the encryption and provide the code for the chip.

Return to Virgil. He will offer the plans for the teleporter in exchange for a favor: if the teleporter works, the Survivor must retrieve a serum from Virgil's old laboratory inside the Institute to cure his FEV affliction. Accept his terms and receive the plans. However, the teleporter is no simple machine. Expert help and lot of resources will be needed to construct it.

At this point, the Sole Survivor needs to make a choice to enlist the help of one of the three factions (the Minutemen, the Brotherhood of Steel, or the Railroad). Speak to either Proctor Ingram (BoS), Sturges (Minutemen) or Tinker Tom (Railroad) and arrange for the construction of the teleporter. The chosen expert will travel to the building site and explain the requirements and necessary materials for each of the four components: the Reflector platform, beam emitter, control console and relay dish.

If the player character chose to ally with the Brotherhood, the teleporter can be built at Boston Airport or any owned settlement, excluding Home Plate, The Mechanist's lair or Nuka-World Red Rocket. Even though the Railroad suggests building it at Mercer Safehouse, it is not required to do so.

The player character can build the signal interceptor in any settlement. Build the stabilized reflector platform first in the target settlement, then return to Ingram, Sturges or Tom and speak to them again. They will give the Sole Survivor the second list of schematics to complete the signal interceptor and travel to (or spawn at) the settlement used as the build site.

Settlements well suited for the build site appear to be Boston Airport and Sanctuary Hills due to large flat areas and abundant spare building capacity.

If building with the Brotherhood's help, Elder Maxson's permission is required before activating the signal interceptor. He will run from Boston Airport to the chosen settlement. Maxson might camp at allied settlements for the night along the way. One might be able to catch him en route to speed up the permission check (unconfirmed), he will be tagged on the Pip-Boy for his entire journey. Easiest option is to sit/sleep for about 8 hours so he will spawn at the settlement or simply build at Boston Airport if using the Brotherhood for help.

Requirements for the teleporter:
 * Enough flat surface area without any obstructions (the emitter needs to be built upon the platform, the combined structure takes up a lot of space).
 * Enough "size" allotment remaining at the settlement (the teleporter is quite large).
 * It requires 27 power.
 * The components have to be linked together with power cables on the same network.

When everything is built, linked together and supplied with enough power, the teleporter is ready for use. Talk to the expert, and get ready for the voyage. The expert (of the assisting ally faction) will instruct the Sole Survivor to step on the platform and the teleportation process will commence.

Bugs

 * The quest will occasionally not start after fully completing Hunter/Hunted.
 * To fix, open the console using ~ key and type in followed by . Further more, if Tinker Tom freezes and doesn't analyse the chip use
 * If the console command does not work, check if Sturges is dead. If he is dead, try console commands to revive or spawn him, then try the command and.
 * Console users will have to uninstall quest related mods, reload to before Hunter/Hunted was finished and repeat the quest until it triggers.
 * If the Brotherhood of Steel faction was chosen to assist, Elder Maxson will occasionally teleport inside the hangar where the remnants of Liberty Prime are. This can occur if one is at building at Boston Airport, making it impossible to reach him through conventional means.
 * To fix this, simply build a bed as close to the back wall, then sleep for 2 hours. If it does not work the first time, simply retry, and he should reappear.
 * If the Commonwealth Minutemen faction was chosen to assist, upon returning from the Institute, it will no longer be possible to assign a task to Sturges, nor relocate him, via the workshop menu. He will no longer require, or use, a bed, nor will he count towards the population of Sanctuary Hills. It is still possible to trade items with him, however.
 * Despite the inclusion of a sensor module on the Signal interceptor - items needed list, one is not actually required to build any part of the teleporter.
 * The quest can become bugged by the player becoming unable to pick dialogue options with Preston after killing the Railroad and making the Brotherhood hostile by slaughtering Danse et al. To proceed to the next stage, set the quest stage to 1000 to teleport to the Institute and continue from there. You will also need to give yourself the network scanner holotape
 * The quest can become bugged when wiring everything. It will keep telling you that the reflector platform is not connected to the circuit, even though it actually is. Storing and rebuilding, and than again wiring everything should do the trick (or building 3 connecting generators (10 power each) and connecting these to the console. Then connect the beam emitter and the relay dish with the console).
 * Allow time after storing and rebuilding for the quest to update. If you still have a quest open to build one of the items (even if it's already built,) the quest may not progress even if you set up the power correctly.
 * Sometimes the stabilized reflector platform wont snap in place with molecular beam emmiter.
 * If one managed to build multiple signal interceptor parts (possibly due to the quest not properly updating when they're built), you cannot scrap the unused extras upon your return.
 * In-progress quests cannot be completed or advanced by communicating with Preston, Desdemona, or Maxson until you choose a faction in The Molecular Level. Only faction choice dialogs are available.
 * If assisting The Railroad and the player chose to create the teleporter at Jamaica Plain when talking to Desdemona about "Patriot" if she is too far away from Tinker Tom it will cancel the dialogue when switching to Tinker Tom.