The main problem was that I didn't have enough capacity on the the VDD_4P2 line. Adding a 10uF capacitor stabilized the system (maybe lower values will work too, but first I used a 10uF SMD capacitor which seems to do the job). I already applied all patches as proposed by Freescale and/or Igor. Next to that, I tried several DDR register settings and now it is working stable.
At a later time I will try to increase the EMI clock, but for now I leave it at 100MHz.
I hope I can help others by posting the settings for our memory chip (Alliance Memory AS4C32M16D2-25BCN, which is 64MBytes)
EMI clock 100MHz (actually 99.3MHz, fractional divider: 29, integer divider: 3)
DRAM_VAL[0] = 0x00000000;
DRAM_VAL[1] = 0x00000000;
DRAM_VAL[2] = 0x00000000;
DRAM_VAL[3] = 0x00000000;
DRAM_VAL[4] = 0x00000000;
DRAM_VAL[5] = 0x00000000;
DRAM_VAL[6] = 0x00000000;
DRAM_VAL[7] = 0x00000000;
DRAM_VAL[8] = 0x00000000;
DRAM_VAL[9] = 0x00000000;
DRAM_VAL[10] = 0x00000000;
DRAM_VAL[11] = 0x00000000;
DRAM_VAL[12] = 0x00000000;
DRAM_VAL[13] = 0x00000000;
DRAM_VAL[14] = 0x00000000;
DRAM_VAL[15] = 0x00000000;
DRAM_VAL[16] = 0x00000000;
DRAM_VAL[17] = 0x00000000;
DRAM_VAL[18] = 0x00000000;
DRAM_VAL[19] = 0x00000000;
DRAM_VAL[20] = 0x00000000;
DRAM_VAL[21] = 0x00000000;
DRAM_VAL[22] = 0x00000000;
DRAM_VAL[23] = 0x00000000;
DRAM_VAL[24] = 0x00000000;
DRAM_VAL[25] = 0x00000000;
DRAM_VAL[26] = 0x00010101;
DRAM_VAL[27] = 0x01010101;
DRAM_VAL[28] = 0x000f0f01;
DRAM_VAL[29] = 0x0102020A;
DRAM_VAL[30] = 0x00000000;
DRAM_VAL[31] = 0x00000001;
DRAM_VAL[32] = 0x00000100;
DRAM_VAL[33] = 0x00000100;
DRAM_VAL[34] = 0x00000000;
DRAM_VAL[35] = 0x00000000;
DRAM_VAL[36] = 0x01010000;
DRAM_VAL[37] = 0x08080404;
DRAM_VAL[38] = 0x03002803;
DRAM_VAL[39] = 0x050000C8;
DRAM_VAL[40] = 0x02004D5A;
DRAM_VAL[41] = 0x00020206;
DRAM_VAL[42] = 0x001B1305;
DRAM_VAL[43] = 0x020B02FF;
DRAM_VAL[44] = 0x02020201;
DRAM_VAL[45] = 0x00C8000C;
DRAM_VAL[46] = 0x00000000;
DRAM_VAL[47] = 0x00000000;
DRAM_VAL[48] = 0x00011900;
DRAM_VAL[49] = 0xffff0303;
DRAM_VAL[50] = 0x00012100;
DRAM_VAL[51] = 0xffff0303;
DRAM_VAL[52] = 0x00012100;
DRAM_VAL[53] = 0xffff0303;
DRAM_VAL[54] = 0x00012100;
DRAM_VAL[55] = 0xffff0303;
DRAM_VAL[56] = 0x00000003;
DRAM_VAL[57] = 0x00000000;
DRAM_VAL[58] = 0x00000000;
DRAM_VAL[59] = 0x00000000;
DRAM_VAL[60] = 0x00000000;
DRAM_VAL[61] = 0x00000000;
DRAM_VAL[62] = 0x00000000;
DRAM_VAL[63] = 0x00000000;
DRAM_VAL[64] = 0x00000000;
DRAM_VAL[65] = 0x00000000;
DRAM_VAL[66] = 0x00000612;
DRAM_VAL[67] = 0x01000f02;
DRAM_VAL[68] = 0x00000000;
DRAM_VAL[69] = 0x00000200;
DRAM_VAL[70] = 0x00020007;
DRAM_VAL[71] = 0xf4004a27;
DRAM_VAL[72] = 0xf4004a27;
DRAM_VAL[73] = 0x00000000;
DRAM_VAL[74] = 0x00000000;
DRAM_VAL[75] = 0x07400300;
DRAM_VAL[76] = 0x07400300;
DRAM_VAL[77] = 0x00000000;
DRAM_VAL[78] = 0x00000000;
DRAM_VAL[79] = 0x00000005;
DRAM_VAL[80] = 0x00000000;
DRAM_VAL[81] = 0x00000000;
DRAM_VAL[82] = 0x01000000;
DRAM_VAL[83] = 0x01020408;
DRAM_VAL[84] = 0x08040201;
DRAM_VAL[85] = 0x000f1133;
DRAM_VAL[86] = 0x00000000;
DRAM_VAL[87] = 0x00001f04;
DRAM_VAL[88] = 0x00001f04;
DRAM_VAL[89] = 0x00000000;
DRAM_VAL[90] = 0x00000000;
DRAM_VAL[91] = 0x00001f04;
DRAM_VAL[92] = 0x00001f04;
DRAM_VAL[93] = 0x00000000;
DRAM_VAL[94] = 0x00000000;
DRAM_VAL[95] = 0x00000000;
DRAM_VAL[96] = 0x00000000;
DRAM_VAL[97] = 0x00000000;
DRAM_VAL[98] = 0x00000000;
DRAM_VAL[99] = 0x00000000;
DRAM_VAL[100] = 0x00000000;
DRAM_VAL[101] = 0x00000000;
DRAM_VAL[102] = 0x00000000;
DRAM_VAL[103] = 0x00000000;
DRAM_VAL[104] = 0x00000000;
DRAM_VAL[105] = 0x00000000;
DRAM_VAL[106] = 0x00000000;
DRAM_VAL[107] = 0x00000000;
DRAM_VAL[108] = 0x00000000;
DRAM_VAL[109] = 0x00000000;
DRAM_VAL[110] = 0x00000000;
DRAM_VAL[111] = 0x00000000;
DRAM_VAL[112] = 0x00000000;
DRAM_VAL[113] = 0x00000000;
DRAM_VAL[114] = 0x00000000;
DRAM_VAL[115] = 0x00000000;
DRAM_VAL[116] = 0x00000000;
DRAM_VAL[117] = 0x00000000;
DRAM_VAL[118] = 0x00000000;
DRAM_VAL[119] = 0x00000000;
DRAM_VAL[120] = 0x00000000;
DRAM_VAL[121] = 0x00000000;
DRAM_VAL[122] = 0x00000000;
DRAM_VAL[123] = 0x00000000;
DRAM_VAL[124] = 0x00000000;
DRAM_VAL[125] = 0x00000000;
DRAM_VAL[126] = 0x00000000;
DRAM_VAL[127] = 0x00000000;
DRAM_VAL[128] = 0x00000000;
DRAM_VAL[129] = 0x00000000;
DRAM_VAL[130] = 0x00000000;
DRAM_VAL[131] = 0x00000000;
DRAM_VAL[132] = 0x00000000;
DRAM_VAL[133] = 0x00000000;
DRAM_VAL[134] = 0x00000000;
DRAM_VAL[135] = 0x00000000;
DRAM_VAL[136] = 0x00000000;
DRAM_VAL[137] = 0x00000000;
DRAM_VAL[138] = 0x00000000;
DRAM_VAL[139] = 0x00000000;
DRAM_VAL[140] = 0x00000000;
DRAM_VAL[141] = 0x00000000;
DRAM_VAL[142] = 0x00000000;
DRAM_VAL[143] = 0x00000000;
DRAM_VAL[144] = 0x00000000;
DRAM_VAL[145] = 0x00000000;
DRAM_VAL[146] = 0x00000000;
DRAM_VAL[147] = 0x00000000;
DRAM_VAL[148] = 0x00000000;
DRAM_VAL[149] = 0x00000000;
DRAM_VAL[150] = 0x00000000;
DRAM_VAL[151] = 0x00000000;
DRAM_VAL[152] = 0x00000000;
DRAM_VAL[153] = 0x00000000;
DRAM_VAL[154] = 0x00000000;
DRAM_VAL[155] = 0x00000000;
DRAM_VAL[156] = 0x00000000;
DRAM_VAL[157] = 0x00000000;
DRAM_VAL[158] = 0x00000000;
DRAM_VAL[159] = 0x00000000;
DRAM_VAL[160] = 0x00000000;
DRAM_VAL[161] = 0x00000000;
DRAM_VAL[162] = 0x00010000;
DRAM_VAL[163] = 0x00030404;
DRAM_VAL[164] = 0x00000002;
DRAM_VAL[165] = 0x00000000;
DRAM_VAL[166] = 0x00000000;
DRAM_VAL[167] = 0x00000000;
DRAM_VAL[168] = 0x00000000;
DRAM_VAL[169] = 0x00000000;
DRAM_VAL[170] = 0x00000000;
DRAM_VAL[171] = 0x01010000;
DRAM_VAL[172] = 0x01000000;
DRAM_VAL[173] = 0x03030000;
DRAM_VAL[174] = 0x00010303;
DRAM_VAL[175] = 0x01020202;
DRAM_VAL[176] = 0x00000000;
DRAM_VAL[177] = 0x02020303;
DRAM_VAL[178] = 0x21002103;
DRAM_VAL[179] = 0x00061200;
DRAM_VAL[180] = 0x06120612;
DRAM_VAL[181] = 0x04420442;
DRAM_VAL[182] = 0x00000000;
DRAM_VAL[183] = 0x00440044;
DRAM_VAL[184] = 0x00000000;
DRAM_VAL[185] = 0x00000000;
DRAM_VAL[186] = 0x00000000;
DRAM_VAL[187] = 0x00000000;
DRAM_VAL[188] = 0x00000000;
DRAM_VAL[189] = 0xffffffff;