Company: SCLXW
Filing Date: 2025-07-23
Form Type: 424B3
Source: 0001193125-25-163077
Chunk: 139

Company: Scilex Holding Co
Filing Date: 2025-07-23
Form: 424B3
Chunk 139
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 The Company shall reimburse Kelley Drye & Warren, LLP (counsel to the lead
Holder) in an aggregate non-accountable amount of $50,000 (the “Legal Fee Amount”) for costs and expenses incurred by it in connection with drafting and negotiation of this Agreement. Each
party to this Agreement shall bear its own expenses in connection with the structuring, documentation, negotiation and closing of the transactions contemplated hereby, except as provided in the previous sentence and except that the Company shall be
responsible for the payment of any placement agent’s fees, financial advisory fees, transfer agent fees, Depository Trust Company fees relating to or arising out of the transactions contemplated hereby.

(g) . Article 9 of the Tranche B SPA (as amended hereby) is hereby incorporated by reference herein,
mutatis mutandis.

[Remainder of Page Intentionally Left Blank]

12

IN WITNESS WHEREOF, each of the undersigned have caused their respective signature page to this Agreement to be duly executed as of the date first written above.

| NOMIS BAY LTD.               |     |                 |
| By:                          |     | /s/ James Keyes |
| Name:                        |     | James Keyes     |
| Title:                       |     | Director        |
| Address:                     |     |                 |
| Wessex House                 |     |                 |
| 3rd Floor                    |     |                 |
| Hamilton, HM 12              |     |                 |
| Bermuda                      |     |                 |
| Attention: Peter Poole       |     |                 |
| Email:                       |     |                 |
| jfenttiman@murchinsonltd.com |     |                 |
| pzogola@murchinsonltd.com    |     |                 |

[ Signature Page to Exchange Agreement]

IN WITNESS WHEREOF, each of the undersigned have caused their respective signature page to this Agreement to be duly executed as of the date first written above.

| SCILEX HOLDING COMPANY                     |     |                 |
| By:                                        |     | /s/ Jaisim Shah |
| Name: Jaisim Shah                          |     |                 |
| Title: Chief Executive Officer & President |     |                 |

[ Signature Page to Exchange Agreement]

Annex A

Form of New Tranche B Warrant

Exhibit 10.4

WARRANT EXCHANGE AGREEMENT

This W ARRANT E XCHANGEA GREEMENT (the
“Agreement”), dated