CONSOLIDATED BALANCE SHEETS (USD $) In Thousands	Sep. 30, 2011	Sep. 30, 2010
Current assets
Cash and cash equivalents	$ 58,833	$ 59,823
Restricted cash	1,293
Marketable securities	65,695	49,011
Accounts receivable, net	76,701	92,273
Inventories, net	107,654	115,787
Prepaid expenses and other current assets	10,348	10,437
Total current assets	320,524	327,331
Property, plant and equipment, net	68,596	63,669
Long-term marketable securities	81,290	33,593
Goodwill	84,727	48,138
Intangible assets, net	44,314	11,123
Equity investment in joint ventures	34,612	31,746
Other assets	2,557	2,624
Total assets	636,620	518,224
Current liabilities
Accounts payable	40,199	65,734
Deferred revenue	14,073	4,365
Accrued warranty and retrofit costs	7,438	8,195
Accrued compensation and benefits	17,288	13,677
Accrued restructuring costs	293	3,509
Accrued income taxes payable	4,015	1,040
Accrued expenses and other current liabilities	12,433	11,635
Total current liabilities	95,739	108,155
Income taxes payable	11,728	12,446
Long-term pension liability	7,161	5,466
Other long-term liabilities	3,394	2,805
Total liabilities	118,022	128,872
Commitments and contingencies (Note 18)
Equity
Preferred stock, $0.01 par value, 1,000,000 shares authorized, no shares issued and outstanding at September 30, 2011 and 2010
Common stock, $0.01 par value, 125,000,000 shares authorized, 79,737,189 shares issued and 66,275,320 shares outstanding at September 30, 2011, 78,869,331 shares issued and 65,407,462 shares outstanding at September 30, 2010	797	789
Additional paid-in capital	1,809,287	1,803,121
Accumulated other comprehensive income	19,480	19,510
Treasury stock at cost, 13,461,869 shares at September 30, 2011 and 2010	(200,956)	(200,956)
Accumulated deficit	(1,110,599)	(1,233,649)
Total Brooks Automation, Inc. stockholders' equity	518,009	388,815
Noncontrolling interests in subsidiaries	589	537
Total equity	518,598	389,352
Total liabilities and equity	$ 636,620	$ 518,224