| School Name | API (2009) | API (2008) |
| Bird Rock Elementary | 973 | 946 |
| La Jolla Elementary | 971 | 914 |
| Torrey Pines Elementary | 968 | 953 |
| Scripps Elementary | 954 | 933 |
| Curie Elementary | 949 | 923 |
| Dingeman Elementary | 946 | 931 |
| Jerabek Elementary | 937 | 918 |
| Green Elementary | 936 | 899 |
| Benchley/Weinberger Elementary | 927 | 903 |
| Sunset View Elementary | 925 | 896 |
| Ericson Elementary | 922 | 894 |
| Explorer Elementary | 920 | 921 |
| Hearst Elementary | 919 | 908 |
| Grant Elementary | 915 | 914 |
| Miramar Ranch Elementary | 914 | 893 |
| Silver Gate Elementary | 910 | 882 |
| Ocean Beach Elementary | 908 | 859 |
| Sandburg Elementary | 908 | 880 |
| Kumeyaay Elementary | 905 | 878 |
| Dailard Elementary | 904 | 903 |
| Holmes Elementary | 900 | 872 |
| Marshall Middle | 897 | 906 |
| Preuss School UCSD | 894 | 879 |
| Hickman Elementary | 894 | 876 |
| Loma Portal Elementary | 892 | 850 |
| Dewey Elementary | 883 | 840 |
| Sessions Elementary | 879 | 827 |
| Muirlands Middle | 879 | 876 |
| Doyle Elementary | 878 | 884 |
| Pacific Beach Elementary | 877 | 845 |
| Vista Grande Elementary | 877 | 842 |
| Hardy Elementary | 872 | 854 |
| Hage Elementary | 872 | 858 |
| Einstein Academy | 870 | 849 |
| Mason Elementary | 868 | 834 |
| Jones Elementary | 864 | 848 |
| Marvin Elementary | 864 | 860 |
| Challenger Middle | 862 | 850 |
| Florence Elementary | 859 | 856 |
| Perry Elementary | 856 | 821 |
| Spreckels Elementary | 851 | 824 |
| Lewis Middle | 851 | 829 |
| Dana | 849 | 835 |
| Crown Point Elementary | 848 | 814 |
| Fletcher Elementary | 845 | 850 |
| Chesterton Elementary | 844 | 808 |
| Longfellow | 844 | 810 |
| Tierrasanta Elementary | 843 | 841 |
| Standley Middle | 842 | 826 |
| Scripps Ranch High | 841 | 821 |
| Penn Elementary | 839 | 816 |
| De Portola Middle | 839 | 818 |
| Wangenheim Middle | 837 | 829 |
| Lindbergh/Schweitzer Elementary | 835 | 804 |
| Zamorano Elementary | 835 | 819 |
| La Jolla High | 832 | 818 |
| Bay Park Elementary | 832 | 779 |
| Mt. Everest Academy | 831 | 837 |
| Museum | 831 | 810 |
| Sequoia Elementary | 828 | 779 |
| Angier Elementary | 825 | 754 |
| Correia Middle | 825 | 770 |
| Pershing Middle | 825 | 796 |
| Foster Elementary | 823 | 781 |
| San Diego International Studies | 818 | 800 |
| High Tech Middle | 817 | 843 |
| Miller Elementary | 817 | 793 |
| KIPP Adelante | 816 | 785 |
| Nye Elementary | 816 | 772 |
| Language Academy | 815 | 800 |
| King/Chavez Primary Academy | 815 | 811 |
| Walker Elementary | 815 | 794 |
| McKinley Elementary | 813 | 771 |
| Field Elementary | 811 | 737 |
| Wegeforth Elementary | 811 | 771 |
| Toler Elementary | 810 | 822 |
| Webster Elementary | 809 | 806 |
| San Diego Cooperative Charter | 808 | 783 |
| Barnard Elementary | 806 | 756 |
| Birney Elementary | 806 | 714 |
| Hancock Elementary | 805 | 799 |
| Kearny International Business | 804 | 755 |
| Johnson Elementary | 803 | 796 |
| Mira Mesa High | 799 | 788 |
| Euclid Elementary | 799 | 774 |
| Health Sciences High and Middle College | 798 | 795 |
| Cadman Elementary | 798 | 751 |
| Hawthorne Elementary | 798 | 793 |
| Momentum Middle | 797 | 804 |
| High Tech High | 797 | 785 |
| Cabrillo Elementary | 797 | 792 |
| Juarez Elementary | 796 | 757 |
| Lee Elementary | 795 | 763 |
| Alcott Elementary | 792 | 748 |
| Albert Einstein Academy Middle | 790 | 795 |
| John Muir | 789 | 786 |
| Gage Elementary | 788 | 760 |
| Oak Park Elementary | 788 | 757 |
| Valencia Park Elementary | 787 | 724 |
| Bethune Elementary | 787 | 786 |
| Boone Elementary | 786 | 749 |
| Whitman Elementary | 785 | 770 |
| High Tech Middle Media Arts | 782 | 809 |
| University City High | 780 | 759 |
| Darnall E-Charter | 780 | 771 |
| Paradise Hills Elementary | 777 | 783 |
| Promise Charter | 775 | 791 |
| Garfield Elementary | 773 | 681 |
| Hamilton Elementary | 773 | 767 |
| High Tech High International | 772 | 786 |
| Cubberley Elementary | 770 | 768 |
| Joyner Elementary | 768 | 695 |
| Franklin Elementary | 768 | 771 |
| Normal Heights Elementary | 766 | 742 |
| Ross Elementary | 766 | 771 |
| San Diego Metro Career and Tech | 765 | 782 |
| Pacific Beach Middle | 761 | 747 |
| San Diego SCPA | 760 | 739 |
| Taft Middle | 760 | 760 |
| Henry High | 759 | 764 |
| Tubman Village | 759 | 758 |
| Cherokee Point Elementary | 758 | 723 |
| High Tech High Media Arts | 757 | 713 |
| Marston Middle | 757 | 737 |
| Point Loma High | 756 | 709 |
| Edison Elementary | 755 | 671 |
| Freese Elementary | 755 | 724 |
| King/Chavez Athletics Academy | 754 | 747 |
| Chollas/Mead Elementary | 754 | 741 |
| Jefferson Elementary | 753 | 739 |
| Kearny Digital Media & Design | 749 | 721 |
| Farb Middle | 749 | 762 |
| Jackson Elementary | 746 | 748 |
| Ibarra Elementary | 745 | 710 |
| Linda Vista Elementary | 744 | 698 |
| Lafayette Elementary | 743 | 745 |
| Encanto Elementary | 740 | 708 |
| Rowan Elementary | 740 | 735 |
| Washington Elementary | 740 | 720 |
| Creative, Performing, and Media Arts | 739 | 753 |
| Balboa Elementary | 738 | 697 |
| Logan Elementary | 738 | 697 |
| Learning Choice Academy | 736 | 733 |
| Baker Elementary | 736 | 714 |
| Carson Elementary | 736 | 704 |
| Serra High | 734 | 737 |
| Rosa Parks Elementary | 733 | 715 |
| Chavez Elementary | 732 | 705 |
| O'Farrell Community Center for Advanced Academy | 730 | 736 |
| Adams Elementary | 728 | 674 |
| Roosevelt International Middle | 726 | 703 |
| Audubon Elementary | 724 | 691 |
| Clay Elementary | 724 | 697 |
| Horton Elementary | 723 | 715 |
| Nubia Leadership Academy | 721 | 706 |
| Golden Hill Elementary | 719 | 697 |
| Kimbrough Elementary | 718 | 704 |
| Kearny SCT | 714 | 683 |
| Holly Drive Leadership Academy | 713 | 635 |
| Rolando Park Elementary | 712 | 731 |
| Keiller Leadership Academy | 710 | 682 |
| North Park Elementary | 710 | 746 |
| Fulton Elementary | 706 | 697 |
| Montgomery Middle | 703 | 688 |
| Central Elementary | 702 | 704 |
| Porter Elementary | 701 | 687 |
| Knox Elementary | 701 | 728 |
| Bayview Terrace Elementary | 698 | 678 |
| Chancellor William McGill School of Success | 697 | 698 |
| Clark Middle | 696 | 722 |
| Rodriguez Elementary | 694 | 644 |
| King/Chavez Charter | 692 | 697 |
| Madison High | 689 | 653 |
| Marshall Elementary | 689 | 627 |
| Bell Middle | 687 | 702 |
| Clairemont High | 684 | 671 |
| Carver Elementary | 681 | 665 |
| Wilson Middle | 679 | 680 |
| Emerson/Bandini Elementary | 673 | 656 |
| San Diego LEADS | 672 | 717 |
| Morse High | 667 | 673 |
| Perkins Elementary | 666 | 666 |
| Audeo Charter | 665 | 664 |
| San Diego Science and Technology | 664 | 684 |
| Mission Bay High | 662 | 633 |
| King/Chavez Arts Academy | 657 | 682 |
| Kearny Construction Tech | 646 | 659 |
| Burbank Elementary | 642 | 652 |
| IFTIN Charter | 638 | 693 |
| Charter School of San Diego | 637 | 618 |
| Mann School of Expedition | 630 | 622 |
| Crawford CHAMPS | 621 | 620 |
| Gompers Charter Middle | 621 | 628 |
| Hoover High | 604 | 578 |
| San Diego MVP Arts | 592 | 562 |
| Lincoln High | 587 | 540 |
| King/Chavez Preparatory Academy | 578 | 590 |
| Crawford IDEA | 574 | 573 |
| Arroyo Paseo Charter High | 565 | 535 |
| Crawford Multimedia and Visual Arts | 561 | 567 |
| Garfield High | 560 | 686 |
| San Diego Business | 557 | 555 |
| Crawford Law and Business | 549 | 576 |
| Twain High | 539 | 569 |
| Whittier/Del Sol Academy | 452 | 476 |
| Cortez Hill Academy | 445 | 569 |
| San Diego CIMA | 439 | 479 |
| Riley/New Dawn | 376 | 363 |
| Mann School of Expression | | |
| Mann School of Exploration | | |
| San Diego Adult Education | | |
| TRACE | | |
| ALBA | | |
| Kroc Middle | | |
| Memorial Academy of Learning & Tech Center | | |