Exhibit 99.1 [LOGO] Blue Valley Ban Corp. FORM OF LETTER TO STOCKHOLDERS WHO HOLD STOCK AS RECORD HOLDERS, THROUGH THE RESTRICTED STOCK AWARD PROGRAM, AND/OR THROUGH THE ESPP PROGRAM (COLLECTIVELY, THE "STOCKHOLDERS") - -------------------------------------------------------------------------------- THE RIGHTS OFFERING SUBSCRIPTION PERIOD WILL EXPIRE AT 5:00 P.M., EASTERN TIME ON DECEMBER 5, 2008, UNLESS BLUE VALLEY BAN CORP. EXTENDS THE RIGHTS OFFERING (SUCH TIME AND DATE WITH RESPECT TO THE EXPIRATION OF THE RIGHTS OFFERING, AS IT MAY BE EXTENDED, THE "EXPIRATION TIME"). - -------------------------------------------------------------------------------- November 14, 2008 Dear Stockholder: Your management has determined that it is in the best interest of Blue Valley Ban Corp. (the "Company") to further strengthen its capital base. Therefore, the Company is raising equity capital through a rights offering to our stockholders. This letter is being delivered by the Company to all Stockholders of its common stock, par value $1.00 per share (the "Common Stock") as of 5:00 p.m., Eastern time on November 10, 2008 (the "Record Date"), to explain a rights offering (the "Rights Offering") of nontransferable rights to subscribe for and purchase shares of Common Stock (the "Rights"). The Rights, the Rights Offering and the Common Stock are described in the enclosed prospectus (the "Prospectus"). Your Rights are evidenced by the enclosed subscription rights certificate (the "Subscription Rights Certificate") registered in your name(s). All exercises of the Rights are irrevocable. You should read the Prospectus carefully before deciding whether to exercise your Rights. In the Rights Offering, the Company is offering an aggregate of approximately 334,000 shares of Common Stock. Each Right will allow you to subscribe for .1352 of a share of Common Stock at a subscription price of $18.00 per share (the "Subscription Price"). In addition, each subscribing stockholder who exercises his or her Rights in full will be eligible to subscribe for additional shares of Common Stock (the "Over-Subscription Right") at the same price of $18.00 per share, subject to availability and pro ration as described in the Prospectus. Holders will not receive fractional shares of Common Stock or cash in lieu of fractional shares of Common Stock as a result of their exercise of Rights pursuant to the Rights Offering. Fractional shares of Common Stock will not be issued in the Rights Offering. We have enclosed copies of the following documents: 1. The Prospectus; 2. Your Subscription Rights Certificate; 3. Instructions as to Use of Blue Valley Ban Corp. Subscription Rights Certificates; and 4. A return envelope addressed to Computershare (the "Subscription Agent"). To exercise the Rights, you should deliver the properly completed and signed Subscription Rights Certificate, with payment of the Subscription Price for each share of Common Stock subscribed for, to the Subscription Agent at or prior to the Expiration Time, as described in the Prospectus. The Subscription Agent must
receive the Subscription Rights Certificate, with payment of the full Subscription Price at or prior to the Expiration Time. Rights not exercised at or prior to the Expiration Time will expire and will be void and no longer exercisable. Additional copies of the enclosed materials may be obtained from the Subscription Agent, by contacting the Subscription Agent at (781) 575-2765 or (800) 546-5141. Any questions or requests for assistance concerning the Rights Offering should be directed to the Subscription Agent. You may also contact Bob Regnier, our President and Chief Executive Officer, at (913) 234-2240 or Mark Fortino our Chief Financial Officer, at (913) 234-2345 from 8:00 a.m. to 5:00 p.m., Central Time, Monday through Friday, if you have any questions. As a Stockholder, you are cordially invited to attend an information session about the Rights Offering. The information session will be held on Monday, November 24, 2008 at 6:00 P.M., Central Time, at the Company's banking center located at 7900 College Boulevard, Overland Park, Kansas 66210. As always, thank you for your investment in and continued support of Blue Valley Ban Corp. Very truly yours, Robert D. Regnier, President and Chief Executive Officer Blue Valley Ban Corp.